WorldWideScience

Sample records for models vary widely

  1. Power System Event Ranking Using a New Linear Parameter-Varying Modeling with a Wide Area Measurement System-Based Approach

    Directory of Open Access Journals (Sweden)

    Mohammad Bagher Abolhasani Jabali

    2017-07-01

    Full Text Available Detecting critical power system events for Dynamic Security Assessment (DSA is required for reliability improvement. The approach proposed in this paper investigates the effects of events on dynamic behavior during nonlinear system response while common approaches use steady-state conditions after events. This paper presents some new and enhanced indices for event ranking based on time-domain simulation and polytopic linear parameter-varying (LPV modeling of a power system. In the proposed approach, a polytopic LPV representation is generated via linearization about some points of the nonlinear dynamic behavior of power system using wide-area measurement system (WAMS concepts and then event ranking is done based on the frequency response of the system models on the vertices. Therefore, the nonlinear behaviors of the system in the time of fault occurrence are considered for events ranking. The proposed algorithm is applied to a power system using nonlinear simulation. The comparison of the results especially in different fault conditions shows the advantages of the proposed approach and indices.

  2. Additional Surgery after Breast-Conserving Surgery Varies Widely

    Science.gov (United States)

    A study published in the Feb. 1, 2012, issue of JAMA found that the number of women who have one or more additional surgeries to remove suspected residual tumor tissue (re-excisions) following breast-conserving surgery (BCS) for breast cancer varies widely across surgeons and hospitals.

  3. Plant Mating Systems Often Vary Widely Among Populations

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    Michael R. Whitehead

    2018-04-01

    Full Text Available Most flowering plants are hermaphroditic, yet the proportion of seeds fertilized by self and outcross pollen varies widely among species, ranging from predominant self-fertilization to exclusive outcrossing. A population's rate of outcrossing has important evolutionary outcomes as it influences genetic structure, effective population size, and offspring fitness. Because most mating system studies have quantified outcrossing rates for just one or two populations, past reviews of mating system diversity have not been able to characterize the extent of variation among populations. Here we present a new database of more than 30 years of mating system studies that report outcrossing rates for three or more populations per species. This survey, which includes 741 populations from 105 species, illustrates substantial and prevalent among-population variation in the mating system. Intermediate outcrossing rates (mixed mating are common; 63% of species had at least one mixed mating population. The variance among populations and within species was not significantly correlated with pollination mode or phylogeny. Our review underscores the need for studies exploring variation in the relative influence of ecological and genetic factors on the mating system, and how this varies among populations. We conclude that estimates of outcrossing rates from single populations are often highly unreliable indicators of the mating system of an entire species.

  4. Conceptual Modeling of Time-Varying Information

    DEFF Research Database (Denmark)

    Gregersen, Heidi; Jensen, Christian Søndergaard

    2004-01-01

    A wide range of database applications manage information that varies over time. Many of the underlying database schemas of these were designed using the Entity-Relationship (ER) model. In the research community as well as in industry, it is common knowledge that the temporal aspects of the mini-world...... are important, but difficult to capture using the ER model. Several enhancements to the ER model have been proposed in an attempt to support the modeling of temporal aspects of information. Common to the existing temporally extended ER models, few or no specific requirements to the models were given...

  5. Finite element form of FDV for widely varying flowfields

    Science.gov (United States)

    Richardson, G. A.; Cassibry, J. T.; Chung, T. J.; Wu, S. T.

    2010-01-01

    We present the Flowfield Dependent Variation (FDV) method for physical applications that have widely varying spatial and temporal scales. Our motivation is to develop a versatile numerical method that is accurate and stable in simulations with complex geometries and with wide variations in space and time scales. The use of a finite element formulation adds capabilities such as flexible grid geometries and exact enforcement of Neumann boundary conditions. While finite element schemes are used extensively by researchers solving computational fluid dynamics in many engineering fields, their use in space physics, astrophysical fluids and laboratory magnetohydrodynamic simulations with shocks has been predominantly overlooked. The FDV method is unique in that numerical diffusion is derived from physical parameters rather than traditional artificial viscosity methods. Numerical instabilities account for most of the difficulties when capturing shocks in these regimes. The first part of this paper concentrates on the presentation of our numerical method formulation for Newtonian and relativistic hydrodynamics. In the second part we present several standard simulation examples that test the method's limitations and verify the FDV method. We show that our finite element formulation is stable and accurate for a range of both Mach numbers and Lorentz factors in one-dimensional test problems. We also present the converging/diverging nozzle which contains both incompressible and compressible flow in the flowfield over a range of subsonic and supersonic regions. We demonstrate the stability of our method and the accuracy by comparison with the results of other methods including the finite difference Total Variation Diminishing method. We explore the use of FDV for both non-relativistic and relativistic fluids (hydrodynamics) with strong shocks in order to establish the effectiveness in future applications of this method in astrophysical and laboratory plasma environments.

  6. Frontal Neurons Modulate Memory Retrieval across Widely Varying Temporal Scales

    Science.gov (United States)

    Zhang, Wen-Hua; Williams, Ziv M.

    2015-01-01

    Once a memory has formed, it is thought to undergo a gradual transition within the brain from short- to long-term storage. This putative process, however, also poses a unique problem to the memory system in that the same learned items must also be retrieved across broadly varying time scales. Here, we find that neurons in the ventrolateral…

  7. Modeling non-Gaussian time-varying vector autoregressive process

    Data.gov (United States)

    National Aeronautics and Space Administration — We present a novel and general methodology for modeling time-varying vector autoregressive processes which are widely used in many areas such as modeling of chemical...

  8. Modelling tourists arrival using time varying parameter

    Science.gov (United States)

    Suciptawati, P.; Sukarsa, K. G.; Kencana, Eka N.

    2017-06-01

    The importance of tourism and its related sectors to support economic development and poverty reduction in many countries increase researchers’ attentions to study and model tourists’ arrival. This work is aimed to demonstrate time varying parameter (TVP) technique to model the arrival of Korean’s tourists to Bali. The number of Korean tourists whom visiting Bali for period January 2010 to December 2015 were used to model the number of Korean’s tourists to Bali (KOR) as dependent variable. The predictors are the exchange rate of Won to IDR (WON), the inflation rate in Korea (INFKR), and the inflation rate in Indonesia (INFID). Observing tourists visit to Bali tend to fluctuate by their nationality, then the model was built by applying TVP and its parameters were approximated using Kalman Filter algorithm. The results showed all of predictor variables (WON, INFKR, INFID) significantly affect KOR. For in-sample and out-of-sample forecast with ARIMA’s forecasted values for the predictors, TVP model gave mean absolute percentage error (MAPE) as much as 11.24 percent and 12.86 percent, respectively.

  9. Varying coefficients model with measurement error.

    Science.gov (United States)

    Li, Liang; Greene, Tom

    2008-06-01

    We propose a semiparametric partially varying coefficient model to study the relationship between serum creatinine concentration and the glomerular filtration rate (GFR) among kidney donors and patients with chronic kidney disease. A regression model is used to relate serum creatinine to GFR and demographic factors in which coefficient of GFR is expressed as a function of age to allow its effect to be age dependent. GFR measurements obtained from the clearance of a radioactively labeled isotope are assumed to be a surrogate for the true GFR, with the relationship between measured and true GFR expressed using an additive error model. We use locally corrected score equations to estimate parameters and coefficient functions, and propose an expected generalized cross-validation (EGCV) method to select the kernel bandwidth. The performance of the proposed methods, which avoid distributional assumptions on the true GFR and residuals, is investigated by simulation. Accounting for measurement error using the proposed model reduced apparent inconsistencies in the relationship between serum creatinine and GFR among different clinical data sets derived from kidney donor and chronic kidney disease source populations.

  10. Crops Models for Varying Environmental Conditions

    Science.gov (United States)

    Jones, Harry; Cavazzoni, James; Keas, Paul

    2001-01-01

    New variable environment Modified Energy Cascade (MEC) crop models were developed for all the Advanced Life Support (ALS) candidate crops and implemented in SIMULINK. The MEC models are based on the Volk, Bugbee, and Wheeler Energy Cascade (EC) model and are derived from more recent Top-Level Energy Cascade (TLEC) models. The MEC models simulate crop plant responses to day-to-day changes in photosynthetic photon flux, photoperiod, carbon dioxide level, temperature, and relative humidity. The original EC model allows changes in light energy but uses a less accurate linear approximation. The simulation outputs of the new MEC models for constant nominal environmental conditions are very similar to those of earlier EC models that use parameters produced by the TLEC models. There are a few differences. The new MEC models allow setting the time for seed emergence, have realistic exponential canopy growth, and have corrected harvest dates for potato and tomato. The new MEC models indicate that the maximum edible biomass per meter squared per day is produced at the maximum allowed carbon dioxide level, the nominal temperatures, and the maximum light input. Reducing the carbon dioxide level from the maximum to the minimum allowed in the model reduces crop production significantly. Increasing temperature decreases production more than it decreases the time to harvest, so productivity in edible biomass per meter squared per day is greater at nominal than maximum temperatures, The productivity in edible biomass per meter squared per day is greatest at the maximum light energy input allowed in the model, but the edible biomass produced per light energy input unit is lower than at nominal light levels. Reducing light levels increases light and power use efficiency. The MEC models suggest we can adjust the light energy day-to- day to accommodate power shortages or Lise excess power while monitoring and controlling edible biomass production.

  11. Nutrient Intake Values for Folate during Pregnancy and Lactation Vary Widely around the World

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    Lisa A. Houghton

    2013-09-01

    Full Text Available Folate is a B-vitamin with particular importance during reproduction due to its role in the synthesis and maintenance of DNA. Folate is well known for its role in preventing neural tube defects (NTDs during the periconceptional period. There is also an increased need for folate throughout pregnancy to support optimal growth and development of the fetus and blood volume expansion and tissue growth of the mother. During lactation, women are at risk of folate deficiency due to increased demands to accommodate milk folate levels. Nutrient Intake Values (NIVs for folate have been calculated to take into account additional needs during pregnancy and lactation. However, these values vary widely between countries. For example, the folate requirement that is set to meet the needs of almost all healthy women during pregnancy varies from 300 µg/day in the United Kingdom to 750 µg/day in Mexico. Currently, there is no accepted standardized terminology or framework for establishing NIVs. This article reviews country-specific NIVs for folate during pregnancy and lactation and the basis for setting these reference values.

  12. Estimates of Continental Ancestry Vary Widely among Individuals with the Same mtDNA Haplogroup

    Science.gov (United States)

    Emery, Leslie S.; Magnaye, Kevin M.; Bigham, Abigail W.; Akey, Joshua M.; Bamshad, Michael J.

    2015-01-01

    The association between a geographical region and an mtDNA haplogroup(s) has provided the basis for using mtDNA haplogroups to infer an individual’s place of origin and genetic ancestry. Although it is well known that ancestry inferences using mtDNA haplogroups and those using genome-wide markers are frequently discrepant, little empirical information exists on the magnitude and scope of such discrepancies between multiple mtDNA haplogroups and worldwide populations. We compared genetic-ancestry inferences made by mtDNA-haplogroup membership to those made by autosomal SNPs in ∼940 samples of the Human Genome Diversity Panel and recently admixed populations from the 1000 Genomes Project. Continental-ancestry proportions often varied widely among individuals sharing the same mtDNA haplogroup. For only half of mtDNA haplogroups did the highest average continental-ancestry proportion match the highest continental-ancestry proportion of a majority of individuals with that haplogroup. Prediction of an individual’s mtDNA haplogroup from his or her continental-ancestry proportions was often incorrect. Collectively, these results indicate that for most individuals in the worldwide populations sampled, mtDNA-haplogroup membership provides limited information about either continental ancestry or continental region of origin. PMID:25620206

  13. An R package "VariABEL" for genome-wide searching of potentially interacting loci by testing genotypic variance heterogeneity

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    Struchalin Maksim V

    2012-01-01

    Full Text Available Abstract Background Hundreds of new loci have been discovered by genome-wide association studies of human traits. These studies mostly focused on associations between single locus and a trait. Interactions between genes and between genes and environmental factors are of interest as they can improve our understanding of the genetic background underlying complex traits. Genome-wide testing of complex genetic models is a computationally demanding task. Moreover, testing of such models leads to multiple comparison problems that reduce the probability of new findings. Assuming that the genetic model underlying a complex trait can include hundreds of genes and environmental factors, testing of these models in genome-wide association studies represent substantial difficulties. We and Pare with colleagues (2010 developed a method allowing to overcome such difficulties. The method is based on the fact that loci which are involved in interactions can show genotypic variance heterogeneity of a trait. Genome-wide testing of such heterogeneity can be a fast scanning approach which can point to the interacting genetic variants. Results In this work we present a new method, SVLM, allowing for variance heterogeneity analysis of imputed genetic variation. Type I error and power of this test are investigated and contracted with these of the Levene's test. We also present an R package, VariABEL, implementing existing and newly developed tests. Conclusions Variance heterogeneity analysis is a promising method for detection of potentially interacting loci. New method and software package developed in this work will facilitate such analysis in genome-wide context.

  14. Chloroplast movement behavior varies widely among species and does not correlate with high light stress tolerance.

    Science.gov (United States)

    Königer, Martina; Bollinger, Nicole

    2012-08-01

    It is well known that chloroplasts move in response to changes in blue light intensity in order to optimize light interception, however, little is known about interspecific variation and the relative importance of this mechanism for the high light stress tolerance of plants. We characterized chloroplast movement behavior as changes in light transmission through a leaf in a variety of species ranging from ferns to monocots and eudicots and found a wide spectrum of responses. Most species exhibited a distinct accumulation response compared to the dark positioning, and all species showed a distinct avoidance response. The speed with which transmission values changed during the avoidance response was consistently faster than that during the accumulation response and speeds varied greatly between species. Plants thriving in higher growth light intensities showed greater degrees of accumulation responses and faster changes in transmission than those that prefer lower light intensities. In some species, the chloroplasts on both the adaxial and abaxial leaf surfaces changed their positioning in response to light, while in other species only the chloroplasts on one leaf side responded. No correlation was found between high light stress tolerance and the speed or degree of transmission changes, indicating that plants can compensate for slow and limited transmission changes using other photoprotective mechanisms.

  15. Management of Inflammatory Bowel Disease during Pregnancy and Breastfeeding Varies Widely: A Need for Further Education

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    Vivian Wai-Mei Huang

    2016-01-01

    Full Text Available Background. Inflammatory bowel disease (IBD affects patients in their young reproductive years. Women with IBD require maintenance therapies during pregnancy and breastfeeding. However, physician management of IBD during pregnancy and breastfeeding has not been well characterized. Objective. To characterize physician perceptions and management of IBD during pregnancy and breastfeeding. Methods. A cross-sectional survey of Canadian physicians who are involved in the care of women with IBD was conducted. The survey included multiple-choice and Likert scale questions about perceptions and practice patterns regarding the management of IBD during pregnancy and breastfeeding. Results. 183 practicing physicians completed the questionnaire: 97/183 (53.0% gastroenterologists; 75/183 (41.0% general practitioners; and 11/183 (6.0% other physicians. Almost half (87/183, 47.5% of the physicians felt comfortable managing pregnant IBD patients. For specified IBD medications, proportions of physicians who indicated they would continue them during pregnancy were as follows: sulfasalazine, 47.4%; oral mesalamine, 67.0%; topical mesalamine, 70.3%; oral prednisone, 68.0%; topical prednisone, 78.0%; oral budesonide, 61.6%; topical budesonide, 75.0%; ciprofloxacin, 15.3%; metronidazole, 31.4%; azathioprine, 57.1%; methotrexate, 2.8%; infliximab, 55.6%; adalimumab, 78.1%. Similar proportions of physicians would continue these medications during breastfeeding. A higher proportion of gastroenterologists than nongastroenterologists indicated appropriate use of these IBD medications during pregnancy and breastfeeding. Conclusions. Physician management of IBD during pregnancy and breastfeeding varies widely. Relative to other physicians, responses of gastroenterologists more frequently reflected best practices pertaining to medications for control of IBD during pregnancy and breastfeeding. There is a need for further education regarding the management of IBD during

  16. Management of Inflammatory Bowel Disease during Pregnancy and Breastfeeding Varies Widely: A Need for Further Education.

    Science.gov (United States)

    Huang, Vivian Wai-Mei; Chang, Hsiu-Ju; Kroeker, Karen Ivy; Goodman, Karen Jean; Hegadoren, Kathleen M; Dieleman, Levinus Albert; Fedorak, Richard Neil

    2016-01-01

    Background. Inflammatory bowel disease (IBD) affects patients in their young reproductive years. Women with IBD require maintenance therapies during pregnancy and breastfeeding. However, physician management of IBD during pregnancy and breastfeeding has not been well characterized. Objective. To characterize physician perceptions and management of IBD during pregnancy and breastfeeding. Methods. A cross-sectional survey of Canadian physicians who are involved in the care of women with IBD was conducted. The survey included multiple-choice and Likert scale questions about perceptions and practice patterns regarding the management of IBD during pregnancy and breastfeeding. Results. 183 practicing physicians completed the questionnaire: 97/183 (53.0%) gastroenterologists; 75/183 (41.0%) general practitioners; and 11/183 (6.0%) other physicians. Almost half (87/183, 47.5%) of the physicians felt comfortable managing pregnant IBD patients. For specified IBD medications, proportions of physicians who indicated they would continue them during pregnancy were as follows: sulfasalazine, 47.4%; oral mesalamine, 67.0%; topical mesalamine, 70.3%; oral prednisone, 68.0%; topical prednisone, 78.0%; oral budesonide, 61.6%; topical budesonide, 75.0%; ciprofloxacin, 15.3%; metronidazole, 31.4%; azathioprine, 57.1%; methotrexate, 2.8%; infliximab, 55.6%; adalimumab, 78.1%. Similar proportions of physicians would continue these medications during breastfeeding. A higher proportion of gastroenterologists than nongastroenterologists indicated appropriate use of these IBD medications during pregnancy and breastfeeding. Conclusions. Physician management of IBD during pregnancy and breastfeeding varies widely. Relative to other physicians, responses of gastroenterologists more frequently reflected best practices pertaining to medications for control of IBD during pregnancy and breastfeeding. There is a need for further education regarding the management of IBD during pregnancy and

  17. Surface and canopy fuels vary widely in 24-yr old postfire lodgepole pine forests

    Science.gov (United States)

    Nelson, K. N.; Turner, M.; Romme, W. H.; Tinker, D. B.

    2013-12-01

    Extreme fire seasons have become common in western North America, and the extent of young postfire forests has grown as fire frequency and annual area burned have increased. These young forests will set the stage for future fires, but an assessment of fuel loads in young forests is lacking. The rate of fuel re-accumulation and fuels variability in postfire forest landscapes is needed to anticipate future fire occurrence and behavior in the American West. We studied fuel characteristics in young lodgepole pine forests that regenerated after the 1988 fires in Yellowstone National Park to address two questions: (1) How do surface fuel characteristics change with time-since-fire? (2) How do canopy and surface fuels vary across the Yellowstone landscape 24 years postfire? During summer 2012, we re-measured surface fuels in 11 plots that were established in 1996 (8 yrs post fire), and we measured surface and canopy fuels in 82 stands (each 0.25 ha) distributed across the Yellowstone post-1988 fire landscape. In the remeasured plots, surface fuel loads generally increased over the last 16 years. One-hr fuels did not change between sample dates, but all other fuel classes (i.e., 10-hr, 100-hr, and 1000-hr) increased by a factor of two or three. Within the sample timeframe, variability of fuel loads within stands decreased significantly. The coefficients of variation decreased for all fuel classes by 23% to 67%. Data from the 82 plots revealed that canopy and surface fuels in 24-year-old stands varied tremendously across the Yellowstone landscape. Live tree densities spanned 0 to 344,067 trees ha-1, producing a mean available canopy fuel load of 7.7 Mg ha-1 and a wide range from 0 to 47 Mg ha-1. Total surface fuel loads averaged 130 Mg ha-1 and ranged from 49 to 229 Mg ha-1, of which 90% was in the 1000-hr fuel class. The mass of fine surface fuels (i.e., litter/duff, 1-hr, 10-hr, and herbaceous fuels) and canopy fuels (i.e., foliage and 1-hr branches) were strongly and

  18. Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions.

    Science.gov (United States)

    Song, Li; Prince, Silvas; Valliyodan, Babu; Joshi, Trupti; Maldonado dos Santos, Joao V; Wang, Jiaojiao; Lin, Li; Wan, Jinrong; Wang, Yongqin; Xu, Dong; Nguyen, Henry T

    2016-01-15

    Soybean is a major crop that provides an important source of protein and oil to humans and animals, but its production can be dramatically decreased by the occurrence of drought stress. Soybeans can survive drought stress if there is a robust and deep root system at the early vegetative growth stage. However, little is known about the genome-wide molecular mechanisms contributing to soybean root system architecture. This study was performed to gain knowledge on transcriptome changes and related molecular mechanisms contributing to soybean root development under water limited conditions. The soybean Williams 82 genotype was subjected to very mild stress (VMS), mild stress (MS) and severe stress (SS) conditions, as well as recovery from the severe stress after re-watering (SR). In total, 6,609 genes in the roots showed differential expression patterns in response to different water-deficit stress levels. Genes involved in hormone (Auxin/Ethylene), carbohydrate, and cell wall-related metabolism (XTH/lipid/flavonoids/lignin) pathways were differentially regulated in the soybean root system. Several transcription factors (TFs) regulating root growth and responses under varying water-deficit conditions were identified and the expression patterns of six TFs were found to be common across the stress levels. Further analysis on the whole plant level led to the finding of tissue-specific or water-deficit levels specific regulation of transcription factors. Analysis of the over-represented motif of different gene groups revealed several new cis-elements associated with different levels of water deficit. The expression patterns of 18 genes were confirmed byquantitative reverse transcription polymerase chain reaction method and demonstrated the accuracy and effectiveness of RNA-Seq. The primary root specific transcriptome in soybean can enable a better understanding of the root response to water deficit conditions. The genes detected in root tissues that were associated with

  19. Sensor placement for calibration of spatially varying model parameters

    Science.gov (United States)

    Nath, Paromita; Hu, Zhen; Mahadevan, Sankaran

    2017-08-01

    This paper presents a sensor placement optimization framework for the calibration of spatially varying model parameters. To account for the randomness of the calibration parameters over space and across specimens, the spatially varying parameter is represented as a random field. Based on this representation, Bayesian calibration of spatially varying parameter is investigated. To reduce the required computational effort during Bayesian calibration, the original computer simulation model is substituted with Kriging surrogate models based on the singular value decomposition (SVD) of the model response and the Karhunen-Loeve expansion (KLE) of the spatially varying parameters. A sensor placement optimization problem is then formulated based on the Bayesian calibration to maximize the expected information gain measured by the expected Kullback-Leibler (K-L) divergence. The optimization problem needs to evaluate the expected K-L divergence repeatedly which requires repeated calibration of the spatially varying parameter, and this significantly increases the computational effort of solving the optimization problem. To overcome this challenge, an approximation for the posterior distribution is employed within the optimization problem to facilitate the identification of the optimal sensor locations using the simulated annealing algorithm. A heat transfer problem with spatially varying thermal conductivity is used to demonstrate the effectiveness of the proposed method.

  20. The deforestation debate; estimates vary widely over the extent of forest loss

    International Nuclear Information System (INIS)

    Monastersky, R.

    1993-01-01

    While tropical forests are vanishing at a disturbing rate, the wide-spread disagreement over deforestation estimates makes it difficult for government officials and scientists to assess the problem. In turn this hampers efforts to gauge the threat of related issues such as habitat destruction and global warming. Creating more confusion is the realization that partly deforested, but not stripped, lands have not been completely taken into account. In addition lands in tropical regions but outside the tropical rain forest are poorly represented. This article uses Brazil as an example of the conflicting estimates. The efforts of the United Nations Food and Agriculture Organization (FAO) to improve its estimates are described. An on-going NASA project to help is also described

  1. Partially linear varying coefficient models stratified by a functional covariate

    KAUST Repository

    Maity, Arnab

    2012-10-01

    We consider the problem of estimation in semiparametric varying coefficient models where the covariate modifying the varying coefficients is functional and is modeled nonparametrically. We develop a kernel-based estimator of the nonparametric component and a profiling estimator of the parametric component of the model and derive their asymptotic properties. Specifically, we show the consistency of the nonparametric functional estimates and derive the asymptotic expansion of the estimates of the parametric component. We illustrate the performance of our methodology using a simulation study and a real data application.

  2. Modelling Flow over Stepped Spillway with Varying Chute Geometry ...

    African Journals Online (AJOL)

    This study has modeled some characteristics of the flows over stepped spillway with varying chute geometry through a laboratory investigation. Using six physically built stepped spillway models, with each having six horizontal plain steps at 4cm constant height, 30 cm width and respective chute slope angles at 310, 320, ...

  3. The period length of fibroblast circadian gene expression varies widely among human individuals.

    Directory of Open Access Journals (Sweden)

    Steven A Brown

    2005-10-01

    Full Text Available Mammalian circadian behavior is governed by a central clock in the suprachiasmatic nucleus of the brain hypothalamus, and its intrinsic period length is believed to affect the phase of daily activities. Measurement of this period length, normally accomplished by prolonged subject observation, is difficult and costly in humans. Because a circadian clock similar to that of the suprachiasmatic nucleus is present in most cell types, we were able to engineer a lentiviral circadian reporter that permits characterization of circadian rhythms in single skin biopsies. Using it, we have determined the period lengths of 19 human individuals. The average value from all subjects, 24.5 h, closely matches average values for human circadian physiology obtained in studies in which circadian period was assessed in the absence of the confounding effects of light input and sleep-wake cycle feedback. Nevertheless, the distribution of period lengths measured from biopsies from different individuals was wider than those reported for circadian physiology. A similar trend was observed when comparing wheel-running behavior with fibroblast period length in mouse strains containing circadian gene disruptions. In mice, inter-individual differences in fibroblast period length correlated with the period of running-wheel activity; in humans, fibroblasts from different individuals showed widely variant circadian periods. Given its robustness, the presented procedure should permit quantitative trait mapping of human period length.

  4. Prediction and dissection of widely-varying association rate constants of actin-binding proteins.

    Science.gov (United States)

    Pang, Xiaodong; Zhou, Kenneth H; Qin, Sanbo; Zhou, Huan-Xiang

    2012-01-01

    Actin is an abundant protein that constitutes a main component of the eukaryotic cytoskeleton. Its polymerization and depolymerization are regulated by a variety of actin-binding proteins. Their functions range from nucleation of actin polymerization to sequestering G-actin in 1∶1 complexes. The kinetics of forming these complexes, with rate constants varying at least three orders of magnitude, is critical to the distinct regulatory functions. Previously we have developed a transient-complex theory for computing protein association mechanisms and association rate constants. The transient complex refers to an intermediate in which the two associating proteins have near-native separation and relative orientation but have yet to form short-range specific interactions of the native complex. The association rate constant is predicted as k(a) = k(a0) e(-ΔG(el*)/k(B)T), where k(a0) is the basal rate constant for reaching the transient complex by free diffusion, and the Boltzmann factor captures the bias of long-range electrostatic interactions. Here we applied the transient-complex theory to study the association kinetics of seven actin-binding proteins with G-actin. These proteins exhibit three classes of association mechanisms, due to their different molecular shapes and flexibility. The 1000-fold k(a) variations among them can mostly be attributed to disparate electrostatic contributions. The basal rate constants also showed variations, resulting from the different shapes and sizes of the interfaces formed by the seven actin-binding proteins with G-actin. This study demonstrates the various ways that actin-binding proteins use physical properties to tune their association mechanisms and rate constants to suit distinct regulatory functions.

  5. Pathogen exposure varies widely among sympatric populations of wild and domestic felids across the United States

    Science.gov (United States)

    Carver, Scott; Bevins, Sarah N.; Lappin, Michael R.; Boydston, Erin E.; Lyren, Lisa M.; Alldredge, Mathew W.; Logan, Kenneth A.; Sweanor, Linda L.; Riley, Seth P.D.; Serieys, Laurel E.K.; Fisher, Robert N.; Vickers, T. Winston; Boyce, Walter M.; McBride, Roy; Cunnigham, Mark C.; Jennings, Megan; Lewis, Jesse S.; Lunn, Tamika; Crooks, Kevin R.; VandeWoude, Sue

    2016-01-01

    Understanding how landscape, host, and pathogen traits contribute to disease exposure requires systematic evaluations of pathogens within and among host species and geographic regions. The relative importance of these attributes is critical for management of wildlife and mitigating domestic animal and human disease, particularly given rapid ecological changes, such as urbanization. We screened >1,000 samples from sympatric populations of puma (Puma concolor), bobcat (Lynx rufus) and domestic cat (Felis catus) across urban gradients in six sites, representing three regions, in North America for exposure to a representative suite of bacterial, protozoal and viral pathogens (Bartonella sp., Toxoplasma gondii, feline herpesvirus-1, feline panleukopenea virus, feline calicivirus, feline immunodeficiency virus). We evaluated prevalence within each species, and examined host trait and land cover determinants of exposure-providing an unprecedented analysis of factors relating to potential for infections in domesticated and wild felids. Prevalence differed among host species (highest for puma and lowest for domestic cat) and was greater for indirectly transmitted pathogens. Sex was inconsistently predictive of exposure to directly transmitted pathogens only, and age infrequently predictive of both direct and indirectly transmitted pathogens. Determinants of pathogen exposure were widely divergent between the wild felid species. For puma, suburban landuse predicted increased exposure to Bartonella sp. in southern California, and FHV-1 exposure increased near urban edges in Florida. This may suggest inter-specific transmission with domestic cats via flea vectors (California) and direct contact (Florida) around urban boundaries. Bobcats captured near urban areas had increased exposure to T. gondii in Florida, suggesting an urban source of prey. Bobcats captured near urban areas in Colorado and Florida had higher FIV exposure, possibly suggesting increased intra

  6. Pathogen exposure varies widely among sympatric populations of wild and domestic felids across the United States.

    Science.gov (United States)

    Carver, Scott; Bevins, Sarah N; Lappin, Michael R; Boydston, Erin E; Lyren, Lisa M; Alldredge, Mathew; Logan, Kenneth A; Sweanor, Linda L; Riley, Seth P D; Serieys, Laurel E K; Fisher, Robert N; Vickers, T Winston; Boyce, Walter; Mcbride, Roy; Cunningham, Mark C; Jennings, Megan; Lewis, Jesse; Lunn, Tamika; Crooks, Kevin R; Vandewoude, Sue

    2016-03-01

    Understanding how landscape, host, and pathogen traits contribute to disease exposure requires systematic evaluations of pathogens within and among host species and geographic regions. The relative importance of these attributes is critical for management of wildlife and mitigating domestic animal and human disease, particularly given rapid ecological changes, such as urbanization. We screened > 1000 samples from sympatric populations of puma (Puma concolor), bobcat (Lynx rufus), and domestic cat (Felis catus) across urban gradients in six sites, representing three regions, in North America for exposure to a representative suite of bacterial, protozoal, and viral pathogens (Bartonella sp., Toxoplasma gondii, feline herpesvirus-1, feline panleukopenea virus, feline calicivirus, and feline immunodeficiency virus). We evaluated prevalence within each species, and examined host trait and land cover determinants of exposure; providing an unprecedented analysis of factors relating to potential for infections in domesticated and wild felids. Prevalence differed among host species (highest for puma and lowest for domestic cat) and was greater for indirectly transmitted pathogens. Sex was inconsistently predictive of exposure to directly transmitted pathogens only, and age infrequently predictive of both direct and indirectly transmitted pathogens. Determinants of pathogen exposure were widely divergent between the wild felid species. For puma, suburban land use predicted increased exposure to Bartonella sp. in southern California, and FHV-1 exposure increased near urban edges in Florida. This may suggest interspecific transmission with domestic cats via flea vectors (California) and direct contact (Florida) around urban boundaries. Bobcats captured near urban areas had increased exposure to T. gondii in Florida, suggesting an urban source of prey Bobcats captured near urban areas in Colorado and Florida had higher FIV exposure, possibly suggesting increased intraspecific

  7. Edge Modeling by Two Blur Parameters in Varying Contrasts.

    Science.gov (United States)

    Seo, Suyoung

    2018-06-01

    This paper presents a method of modeling edge profiles with two blur parameters, and estimating and predicting those edge parameters with varying brightness combinations and camera-to-object distances (COD). First, the validity of the edge model is proven mathematically. Then, it is proven experimentally with edges from a set of images captured for specifically designed target sheets and with edges from natural images. Estimation of the two blur parameters for each observed edge profile is performed with a brute-force method to find parameters that produce global minimum errors. Then, using the estimated blur parameters, actual blur parameters of edges with arbitrary brightness combinations are predicted using a surface interpolation method (i.e., kriging). The predicted surfaces show that the two blur parameters of the proposed edge model depend on both dark-side edge brightness and light-side edge brightness following a certain global trend. This is similar across varying CODs. The proposed edge model is compared with a one-blur parameter edge model using experiments of the root mean squared error for fitting the edge models to each observed edge profile. The comparison results suggest that the proposed edge model has superiority over the one-blur parameter edge model in most cases where edges have varying brightness combinations.

  8. Initial locomotor sensitivity to cocaine varies widely among inbred mouse strains.

    Science.gov (United States)

    Wiltshire, T; Ervin, R B; Duan, H; Bogue, M A; Zamboni, W C; Cook, S; Chung, W; Zou, F; Tarantino, L M

    2015-03-01

    Initial sensitivity to psychostimulants can predict subsequent use and abuse in humans. Acute locomotor activation in response to psychostimulants is commonly used as an animal model of initial drug sensitivity and has been shown to have a substantial genetic component. Identifying the specific genetic differences that lead to phenotypic differences in initial drug sensitivity can advance our understanding of the processes that lead to addiction. Phenotyping inbred mouse strain panels are frequently used as a first step for studying the genetic architecture of complex traits. We assessed locomotor activation following a single, acute 20 mg/kg dose of cocaine (COC) in males from 45 inbred mouse strains and observed significant phenotypic variation across strains indicating a substantial genetic component. We also measured levels of COC, the active metabolite, norcocaine and the major inactive metabolite, benzoylecgonine, in plasma and brain in the same set of inbred strains. Pharmacokinetic (PK) and behavioral data were significantly correlated, but at a level that indicates that PK alone does not account for the behavioral differences observed across strains. Phenotypic data from this reference population of inbred strains can be utilized in studies aimed at examining the role of psychostimulant-induced locomotor activation on drug reward and reinforcement and to test theories about addiction processes. Moreover, these data serve as a starting point for identifying genes that alter sensitivity to the locomotor stimulatory effects of COC. © 2015 John Wiley & Sons Ltd and International Behavioural and Neural Genetics Society.

  9. Modelling Acoustic Wave Propagation in Axisymmetric Varying-Radius Waveguides

    DEFF Research Database (Denmark)

    Bæk, David; Willatzen, Morten

    2008-01-01

    A computationally fast and accurate model (a set of coupled ordinary differential equations) for fluid sound-wave propagation in infinite axisymmetric waveguides of varying radius is proposed. The model accounts for fluid heat conduction and fluid irrotational viscosity. The model problem is solved...... by expanding solutions in terms of cross-sectional eigenfunctions following Stevenson’s method. A transfer matrix can be easily constructed from simple model responses of a given waveguide and later used in computing the response to any complex wave input. Energy losses due to heat conduction and viscous...

  10. Modeling maximum daily temperature using a varying coefficient regression model

    Science.gov (United States)

    Han Li; Xinwei Deng; Dong-Yum Kim; Eric P. Smith

    2014-01-01

    Relationships between stream water and air temperatures are often modeled using linear or nonlinear regression methods. Despite a strong relationship between water and air temperatures and a variety of models that are effective for data summarized on a weekly basis, such models did not yield consistently good predictions for summaries such as daily maximum temperature...

  11. Robust linear parameter varying induction motor control with polytopic models

    Directory of Open Access Journals (Sweden)

    Dalila Khamari

    2013-01-01

    Full Text Available This paper deals with a robust controller for an induction motor which is represented as a linear parameter varying systems. To do so linear matrix inequality (LMI based approach and robust Lyapunov feedback controller are associated. This new approach is related to the fact that the synthesis of a linear parameter varying (LPV feedback controller for the inner loop take into account rotor resistance and mechanical speed as varying parameter. An LPV flux observer is also synthesized to estimate rotor flux providing reference to cited above regulator. The induction motor is described as a polytopic model because of speed and rotor resistance affine dependence their values can be estimated on line during systems operations. The simulation results are presented to confirm the effectiveness of the proposed approach where robustness stability and high performances have been achieved over the entire operating range of the induction motor.

  12. Process model for ammonia volatilization from anaerobic swine lagoons incorporating varying wind speeds and biogas bubbling

    Science.gov (United States)

    Ammonia volatilization from treatment lagoons varies widely with the total ammonia concentration, pH, temperature, suspended solids, atmospheric ammonia concentration above the water surface, and wind speed. Ammonia emissions were estimated with a process-based mechanistic model integrating ammonia ...

  13. Modeling information diffusion in time-varying community networks

    Science.gov (United States)

    Cui, Xuelian; Zhao, Narisa

    2017-12-01

    Social networks are rarely static, and they typically have time-varying network topologies. A great number of studies have modeled temporal networks and explored social contagion processes within these models; however, few of these studies have considered community structure variations. In this paper, we present a study of how the time-varying property of a modular structure influences the information dissemination. First, we propose a continuous-time Markov model of information diffusion where two parameters, mobility rate and community attractiveness, are introduced to address the time-varying nature of the community structure. The basic reproduction number is derived, and the accuracy of this model is evaluated by comparing the simulation and theoretical results. Furthermore, numerical results illustrate that generally both the mobility rate and community attractiveness significantly promote the information diffusion process, especially in the initial outbreak stage. Moreover, the strength of this promotion effect is much stronger when the modularity is higher. Counterintuitively, it is found that when all communities have the same attractiveness, social mobility no longer accelerates the diffusion process. In addition, we show that the local spreading in the advantage group has been greatly enhanced due to the agglomeration effect caused by the social mobility and community attractiveness difference, which thus increases the global spreading.

  14. Modelling Time-Varying Volatility in Financial Returns

    DEFF Research Database (Denmark)

    Amado, Cristina; Laakkonen, Helinä

    2014-01-01

    The “unusually uncertain” phase in the global financial markets has inspired many researchers to study the effects of ambiguity (or “Knightian uncertainty”) on the decisions made by investors and their implications for the capital markets. We contribute to this literature by using a modified...... version of the time-varying GARCH model of Amado and Teräsvirta (2013) to analyze whether the increasing uncertainty has caused excess volatility in the US and European government bond markets. In our model, volatility is multiplicatively decomposed into two time-varying conditional components: the first...... being captured by a stable GARCH(1,1) process and the second driven by the level of uncertainty in the financial market....

  15. Model Complexities of Shallow Networks Representing Highly Varying Functions

    Czech Academy of Sciences Publication Activity Database

    Kůrková, Věra; Sanguineti, M.

    2016-01-01

    Roč. 171, 1 January (2016), s. 598-604 ISSN 0925-2312 R&D Projects: GA MŠk(CZ) LD13002 Grant - others:grant for Visiting Professors(IT) GNAMPA-INdAM Institutional support: RVO:67985807 Keywords : shallow networks * model complexity * highly varying functions * Chernoff bound * perceptrons * Gaussian kernel units Subject RIV: IN - Informatics, Computer Science Impact factor: 3.317, year: 2016

  16. H1N1 influenza viruses varying widely in hemagglutinin stability transmit efficiently from swine to swine and to ferrets.

    Directory of Open Access Journals (Sweden)

    Marion Russier

    2017-03-01

    Full Text Available A pandemic-capable influenza virus requires a hemagglutinin (HA surface glycoprotein that is immunologically unseen by most people and is capable of supporting replication and transmission in humans. HA stabilization has been linked to 2009 pH1N1 pandemic potential in humans and H5N1 airborne transmissibility in the ferret model. Swine have served as an intermediate host for zoonotic influenza viruses, yet the evolutionary pressure exerted by this host on HA stability was unknown. For over 70 contemporary swine H1 and H3 isolates, we measured HA activation pH to range from pH 5.1 to 5.9 for H1 viruses and pH 5.3 to 5.8 for H3 viruses. Thus, contemporary swine isolates vary widely in HA stability, having values favored by both avian (pH >5.5 and human and ferret (pH ≤5.5 species. Using an early 2009 pandemic H1N1 (pH1N1 virus backbone, we generated three viruses differing by one HA residue that only altered HA stability: WT (pH 5.5, HA1-Y17H (pH 6.0, and HA2-R106K (pH 5.3. All three replicated in pigs and transmitted from pig-to-pig and pig-to-ferret. WT and R106 viruses maintained HA genotype and phenotype after transmission. Y17H (pH 6.0 acquired HA mutations that stabilized the HA protein to pH 5.8 after transmission to pigs and 5.5 after transmission to ferrets. Overall, we found swine support a broad range of HA activation pH for contact transmission and many recent swine H1N1 and H3N2 isolates have stabilized (human-like HA proteins. This constitutes a heightened pandemic risk and underscores the importance of ongoing surveillance and control efforts for swine viruses.

  17. Testing for time-varying loadings in dynamic factor models

    DEFF Research Database (Denmark)

    Mikkelsen, Jakob Guldbæk

    Abstract: In this paper we develop a test for time-varying factor loadings in factor models. The test is simple to compute and is constructed from estimated factors and residuals using the principal components estimator. The hypothesis is tested by regressing the squared residuals on the squared...... factors. The squared correlation coefficient times the sample size has a limiting chi-squared distribution. The test can be made robust to serial correlation in the idiosyncratic errors. We find evidence for factor loadings variance in over half of the variables in a dataset for the US economy, while...

  18. Attributing varying ENSO amplitudes in climate model ensembles

    Science.gov (United States)

    Watanabe, M.; Kug, J.-S.; Jin, F.-F.; Collins, M.; Ohba, M.; Wittenberg, A.

    2012-04-01

    Realistic simulation of the El Niño-Southern Oscillation (ENSO) phenomenon, which has a great impact on the global weather and climate, is of primary importance in the coupled atmosphere-ocean modeling. Nevertheless, the ENSO amplitude is known to vary considerably in a multi-model ensemble (MME) archived in the coupled model inter-comparison project phase 3 (CMIP3). Given a large uncertainty in the atmospheric processes having a substantial influence to the models' ENSO intensity, we constructed physics parameter ensembles (PPEs) based on four climate models (two of them are included in the CMIP5 archive) in which parameters in the atmospheric parameterization schemes have been perturbed. Analysis to the 33-member PPEs reveals a positive relationship between the ENSO amplitude and the mean precipitation over the eastern equatorial Pacific in each model. This relationship is explained by the mean state difference controling the ENSO activity but not by the ENSO rectification of the mean state. The wetter mean state in the eastern equatorial Pacific favors an eastward shift in the equatorial zonal wind stress response to El Niño/La Niña, which acts to increase the ENSO amplitude due to enhanced coupled instability. Such a relationship, however, cannot be seen in both CMIP3 and CMIP5 MMEs, indicating that the above mechanism does not explain the diversity in ENSO amplitude across the models. Yet, ensemble historical runs available for some of the CMIP5 models show the positive relationship between the ENSO amplitude and the mean precipitation, providing a useful insight into the ENSO changes under the global warming in individual models.

  19. Model microswimmers in channels with varying cross section

    Science.gov (United States)

    Malgaretti, Paolo; Stark, Holger

    2017-05-01

    We study different types of microswimmers moving in channels with varying cross section and thereby interacting hydrodynamically with the channel walls. Starting from the Smoluchowski equation for a dilute suspension, for which interactions among swimmers can be neglected, we derive analytic expressions for the lateral probability distribution between plane channel walls. For weakly corrugated channels, we extend the Fick-Jacobs approach to microswimmers and thereby derive an effective equation for the probability distribution along the channel axis. Two regimes arise dominated either by entropic forces due to the geometrical confinement or by the active motion. In particular, our results show that the accumulation of microswimmers at channel walls is sensitive to both the underlying swimming mechanism and the geometry of the channels. Finally, for asymmetric channel corrugation, our model predicts a rectification of microswimmers along the channel, the strength and direction of which strongly depends on the swimmer type.

  20. A thermal model for photovoltaic panels under varying atmospheric conditions

    International Nuclear Information System (INIS)

    Armstrong, S.; Hurley, W.G.

    2010-01-01

    The response of the photovoltaic (PV) panel temperature is dynamic with respect to the changes in the incoming solar radiation. During periods of rapidly changing conditions, a steady state model of the operating temperature cannot be justified because the response time of the PV panel temperature becomes significant due to its large thermal mass. Therefore, it is of interest to determine the thermal response time of the PV panel. Previous attempts to determine the thermal response time have used indoor measurements, controlling the wind flow over the surface of the panel with fans or conducting the experiments in darkness to avoid radiative heat loss effects. In real operating conditions, the effective PV panel temperature is subjected to randomly varying ambient temperature and fluctuating wind speeds and directions; parameters that are not replicated in controlled, indoor experiments. A new thermal model is proposed that incorporates atmospheric conditions; effects of PV panel material composition and mounting structure. Experimental results are presented which verify the thermal behaviour of a photovoltaic panel for low to strong winds.

  1. A potato model intercomparison across varying climates and productivity levels

    DEFF Research Database (Denmark)

    H. Fleisher, David; Condori, Bruno; Quiroz, Roberto

    2017-01-01

    unknown among models. Using median model ensemble values, yield increased on average 6% per 100-ppm C, declined 4.6% per °C, and declined 2% for every 10% decrease in rainfall (for non-irrigated sites). Differences in predictions due to model representation of light utilization were significant (p ...A potato crop multi-model assessment was conducted to quantify variation among models and evaluate responses to climate change. Nine modeling groups simulated agronomic and climatic responses at low- (Chinoli, Bolivia and Gisozi, Burundi) and high- (Jyndevad, Denmark and Washington, United States......) input management sites. Two calibration stages were explored, partial (P1), where experimental dry matter data were not provided, and full (P2). The median model ensemble response outperformed any single model in terms of replicating observed yield across all locations. Uncertainty in simulated yield...

  2. Guaranteed Student Loans: Profits of Secondary Market Lenders Vary Widely. United States General Accounting Office Briefing Report to Congressional Requesters.

    Science.gov (United States)

    General Accounting Office, Washington, DC. Div. of Human Resources.

    This report was prepared to determine lenders' rates of return or profitability on Stafford loans in their portfolios, reasons for varying levels of profitability among institutions that hold such loans, and the effect of 1986 subsidy reductions on these lenders' profitability. The study focused on the activities of lenders that purchase Stafford…

  3. Assessment of Homodyned K Distribution Modeling Ultrasonic Speckles from Scatterers with Varying Spatial Organizations

    Directory of Open Access Journals (Sweden)

    Xiao Hu

    2017-01-01

    Full Text Available Objective. This paper presents an assessment of physical meanings of parameter and goodness of fit for homodyned K (HK distribution modeling ultrasonic speckles from scatterer distributions with wide-varying spatial organizations. Methods. A set of 3D scatterer phantoms based on gamma distributions is built to be implemented from the clustered to random to uniform scatterer distributions continuously. The model parameters are obtained by maximum likelihood estimation (MLE from statistical histograms of the ultrasonic envelope data and then compared with those by the optimally fitting models chosen from three single distributions. Results show that the parameters of the HK distribution still present their respective physical meanings of independent contributions in the scatterer distributions. Moreover, the HK distribution presents better goodness of fit with a maximum relative MLE difference of 6.23% for random or clustered scatterers with a well-organized periodic structure. Experiments based on ultrasonic envelope data from common carotid arterial B-mode images of human subjects validate the modeling performance of HK distribution. Conclusion. We conclude that the HK model for ultrasonic speckles is a better choice for characterizing tissue with a wide variety of spatial organizations, especially the emphasis on the goodness of fit for the tissue in practical applications.

  4. Conditional firing probabilities in cultured neuronal networks: a stable underlying structure in widely varying spontaneous activity patterns

    NARCIS (Netherlands)

    le Feber, Jakob; Rutten, Wim; Stegenga, J.; Wolters, P.S.; Ramakers, G.J.A.; van Pelt, J.

    2007-01-01

    To properly observe induced connectivity changes after training sessions, one needs a network model that describes individual relationships in sufficient detail to enable observation of induced changes and yet reveals some kind of stability in these relationships. We analyzed spontaneous firing

  5. Soil Compressibility Models for a Wide Stress Range

    KAUST Repository

    Chong, Song-Hun

    2016-03-03

    Soil compressibility models with physically correct asymptotic void ratios are required to analyze situations that involve a wide stress range. Previously suggested models and other functions are adapted to satisfy asymptotic void ratios at low and high stress levels; all updated models involve four parameters. Compiled consolidation data for remolded and natural clays are used to test the models and to develop correlations between model parameters and index properties. Models can adequately fit soil compression data for a wide range of stresses and soil types; in particular, models that involve the power of the stress σ\\'β display higher flexibility to capture the brittle response of some natural soils. The use of a single continuous function avoids numerical discontinuities or the need for ad hoc procedures to determine the yield stress. The tangent stiffness-readily computed for all models-should not be mistaken for the small-strain constant-fabric stiffness. © 2016 American Society of Civil Engineers.

  6. Spline interpolations besides wood model widely used in lactation

    Science.gov (United States)

    Korkmaz, Mehmet

    2017-04-01

    In this study, for lactation curve, spline interpolations, alternative modeling passing through exactly all data points with respect to widely used Wood model applied to lactation data were be discussed. These models are linear spline, quadratic spline and cubic spline. The observed and estimated values according to spline interpolations and Wood model were given with their Error Sum of Squares and also the lactation curves of spline interpolations and widely used Wood model were shown on the same graph. Thus, the differences have been observed. The estimates for some intermediate values were done by using spline interpolations and Wood model. By using spline interpolations, the estimates of intermediate values could be made more precise. Furthermore, by using spline interpolations, the predicted values for missing or incorrect observation were very successful according to the values of Wood model. By using spline interpolations, new ideas and interpretations in addition to the information of the well-known classical analysis were shown to the investigators.

  7. Model Predictive Control of Nonlinear Parameter Varying Systems via Receding Horizon Control Lyapunov Functions

    National Research Council Canada - National Science Library

    Sznaier, Mario

    2001-01-01

    .... In this chapter we propose a suboptimal regulator for nonlinear parameter varying, control affine systems based upon the combination of model predictive and control Lyapunov function techniques...

  8. Traffic-driven model of the World Wide Web graph

    OpenAIRE

    Barrat, Alain; Barthelemy, Marc; Vespignani, Alessandro

    2004-01-01

    We propose a model for the World Wide Web graph that couples the topological growth with the traffic's dynamical evolution. The model is based on a simple traffic-driven dynamics and generates weighted directed graphs exhibiting the statistical properties observed in the Web. In particular, the model yields a non-trivial time evolution of vertices and heavy-tail distributions for the topological and traffic properties. The generated graphs exhibit a complex architecture with a hierarchy of co...

  9. The features of modelling semiconductor lasers with a wide contact

    Directory of Open Access Journals (Sweden)

    Rzhanov Alexey

    2017-01-01

    Full Text Available The aspects of calculating the dynamics and statics of powerful semiconductor laser diodes radiation are investigated. It takes into account the main physical mechanisms influencing power, spectral composition, far and near field of laser radiation. It outlines a dynamic distributed model of a semiconductor laser with a wide contact and possible algorithms for its implementation.

  10. Long Memory of Financial Time Series and Hidden Markov Models with Time-Varying Parameters

    DEFF Research Database (Denmark)

    Nystrup, Peter; Madsen, Henrik; Lindström, Erik

    2016-01-01

    Hidden Markov models are often used to model daily returns and to infer the hidden state of financial markets. Previous studies have found that the estimated models change over time, but the implications of the time-varying behavior have not been thoroughly examined. This paper presents an adaptive...... estimation approach that allows for the parameters of the estimated models to be time varying. It is shown that a two-state Gaussian hidden Markov model with time-varying parameters is able to reproduce the long memory of squared daily returns that was previously believed to be the most difficult fact...... to reproduce with a hidden Markov model. Capturing the time-varying behavior of the parameters also leads to improved one-step density forecasts. Finally, it is shown that the forecasting performance of the estimated models can be further improved using local smoothing to forecast the parameter variations....

  11. Optimal Control of a Delay-Varying Computer Virus Propagation Model

    OpenAIRE

    Ren, Jianguo; Xu, Yonghong; Zhang, Chunming

    2013-01-01

    By incorporating the objective of keeping a low number of infected nodes and a high number of recovered nodes at a lower cost into a known computer virus model (the delay-varying SIRC model) extended by introducing quarantine, a novel model is described by means of the optimal control strategy and theoretically analyzed. Through the comparison of simulation results, it is shown that the propagation of computer virus with varying latency period can be suppressed effectively by the optimal cont...

  12. Modeling Nonstationary Emotion Dynamics in Dyads using a Time-Varying Vector-Autoregressive Model.

    Science.gov (United States)

    Bringmann, Laura F; Ferrer, Emilio; Hamaker, Ellen L; Borsboom, Denny; Tuerlinckx, Francis

    2018-03-05

    Emotion dynamics are likely to arise in an interpersonal context. Standard methods to study emotions in interpersonal interaction are limited because stationarity is assumed. This means that the dynamics, for example, time-lagged relations, are invariant across time periods. However, this is generally an unrealistic assumption. Whether caused by an external (e.g., divorce) or an internal (e.g., rumination) event, emotion dynamics are prone to change. The semi-parametric time-varying vector-autoregressive (TV-VAR) model is based on well-studied generalized additive models, implemented in the software R. The TV-VAR can explicitly model changes in temporal dependency without pre-existing knowledge about the nature of change. A simulation study is presented, showing that the TV-VAR model is superior to the standard time-invariant VAR model when the dynamics change over time. The TV-VAR model is applied to empirical data on daily feelings of positive affect (PA) from a single couple. Our analyses indicate reliable changes in the male's emotion dynamics over time, but not in the female's-which were not predicted by her own affect or that of her partner. This application illustrates the usefulness of using a TV-VAR model to detect changes in the dynamics in a system.

  13. Long memory of financial time series and hidden Markov models with time-varying parameters

    DEFF Research Database (Denmark)

    Nystrup, Peter; Madsen, Henrik; Lindström, Erik

    Hidden Markov models are often used to capture stylized facts of daily returns and to infer the hidden state of financial markets. Previous studies have found that the estimated models change over time, but the implications of the time-varying behavior for the ability to reproduce the stylized...... facts have not been thoroughly examined. This paper presents an adaptive estimation approach that allows for the parameters of the estimated models to be time-varying. It is shown that a two-state Gaussian hidden Markov model with time-varying parameters is able to reproduce the long memory of squared...... daily returns that was previously believed to be the most difficult fact to reproduce with a hidden Markov model. Capturing the time-varying behavior of the parameters also leads to improved one-step predictions....

  14. Wide-area traffic: The failure of Poisson modeling

    Energy Technology Data Exchange (ETDEWEB)

    Paxson, V.; Floyd, S.

    1994-08-01

    Network arrivals are often modeled as Poisson processes for analytic simplicity, even though a number of traffic studies have shown that packet interarrivals are not exponentially distributed. The authors evaluate 21 wide-area traces, investigating a number of wide-area TCP arrival processes (session and connection arrivals, FTPDATA connection arrivals within FTP sessions, and TELNET packet arrivals) to determine the error introduced by modeling them using Poisson processes. The authors find that user-initiated TCP session arrivals, such as remote-login and file-transfer, are well-modeled as Poisson processes with fixed hourly rates, but that other connection arrivals deviate considerably from Poisson; that modeling TELNET packet interarrivals as exponential grievously underestimates the burstiness of TELNET traffic, but using the empirical Tcplib[DJCME92] interarrivals preserves burstiness over many time scales; and that FTPDATA connection arrivals within FTP sessions come bunched into ``connection bursts``, the largest of which are so large that they completely dominate FTPDATA traffic. Finally, they offer some preliminary results regarding how the findings relate to the possible self-similarity of wide-area traffic.

  15. Transformer Model in Wide Frequency Bandwidth for Power Electronics Systems

    OpenAIRE

    Gonzalez-Garcia, Carlos; Pleite, Jorge

    2013-01-01

    The development of the smart grids leads to new challenges on the power electronics equipment and power transformers. The use of power electronic transformer presents several advantages, but new problems related with the application of high frequency voltage and current components come across. Thus, an accurate knowledge of the transformer behavior in a wide frequency range is mandatory. A novel modeling procedure to relate the transformer physical behavior and its frequency response by means...

  16. Linear parameter-varying modeling and control of the steam temperature in a Canadian SCWR

    Energy Technology Data Exchange (ETDEWEB)

    Sun, Peiwei, E-mail: sunpeiwei@mail.xjtu.edu.cn; Zhang, Jianmin; Su, Guanghui

    2017-03-15

    Highlights: • Nonlinearity of Canadian SCWR is analyzed based on step responses and Nyquist plots. • LPV model is derived through Jacobian linearization and curve fitting. • An output feedback H{sub ∞} controller is synthesized for the steam temperature. • The control performance is evaluated by step disturbances and wide range operation. • The controller can stabilize the system and reject the reactor power disturbance. - Abstract: The Canadian direct-cycle Supercritical Water-cooled Reactor (SCWR) is a pressure-tube type SCWR under development in Canada. The dynamics of the steam temperature have a high degree of nonlinearity and are highly sensitive to reactor power disturbances. Traditional gain scheduling control cannot theoretically guarantee stability for all operating regions. The control performance can also be deteriorated when the controllers are switched. In this paper, a linear parameter-varying (LPV) strategy is proposed to solve such problems. Jacobian linearization and curve fitting are applied to derive the LPV model, which is verified using a nonlinear dynamic model and determined to be sufficiently accurate for control studies. An output feedback H{sub ∞} controller is synthesized to stabilize the steam temperature system and reject reactor power disturbances. The LPV steam temperature controller is implemented using a nonlinear dynamic model, and step changes in the setpoints and typical load patterns are carried out in the testing process. It is demonstrated through numerical simulation that the LPV controller not only stabilizes the steam temperature under different disturbances but also efficiently rejects reactor power disturbances and suppresses the steam temperature variation at different power levels. The LPV approach is effective in solving control problems of the steam temperature in the Canadian SCWR.

  17. Linear parameter-varying modeling and control of the steam temperature in a Canadian SCWR

    International Nuclear Information System (INIS)

    Sun, Peiwei; Zhang, Jianmin; Su, Guanghui

    2017-01-01

    Highlights: • Nonlinearity of Canadian SCWR is analyzed based on step responses and Nyquist plots. • LPV model is derived through Jacobian linearization and curve fitting. • An output feedback H ∞ controller is synthesized for the steam temperature. • The control performance is evaluated by step disturbances and wide range operation. • The controller can stabilize the system and reject the reactor power disturbance. - Abstract: The Canadian direct-cycle Supercritical Water-cooled Reactor (SCWR) is a pressure-tube type SCWR under development in Canada. The dynamics of the steam temperature have a high degree of nonlinearity and are highly sensitive to reactor power disturbances. Traditional gain scheduling control cannot theoretically guarantee stability for all operating regions. The control performance can also be deteriorated when the controllers are switched. In this paper, a linear parameter-varying (LPV) strategy is proposed to solve such problems. Jacobian linearization and curve fitting are applied to derive the LPV model, which is verified using a nonlinear dynamic model and determined to be sufficiently accurate for control studies. An output feedback H ∞ controller is synthesized to stabilize the steam temperature system and reject reactor power disturbances. The LPV steam temperature controller is implemented using a nonlinear dynamic model, and step changes in the setpoints and typical load patterns are carried out in the testing process. It is demonstrated through numerical simulation that the LPV controller not only stabilizes the steam temperature under different disturbances but also efficiently rejects reactor power disturbances and suppresses the steam temperature variation at different power levels. The LPV approach is effective in solving control problems of the steam temperature in the Canadian SCWR.

  18. Positive Almost Periodic Solutions for a Time-Varying Fishing Model with Delay

    Directory of Open Access Journals (Sweden)

    Xia Li

    2011-01-01

    Full Text Available This paper is concerned with a time-varying fishing model with delay. By means of the continuation theorem of coincidence degree theory, we prove that it has at least one positive almost periodic solution.

  19. Dynamic linear models to explore time-varying suspended sediment-discharge rating curves

    Science.gov (United States)

    Ahn, Kuk-Hyun; Yellen, Brian; Steinschneider, Scott

    2017-06-01

    This study presents a new method to examine long-term dynamics in sediment yield using time-varying sediment-discharge rating curves. Dynamic linear models (DLMs) are introduced as a time series filter that can assess how the relationship between streamflow and sediment concentration or load changes over time in response to a wide variety of natural and anthropogenic watershed disturbances or long-term changes. The filter operates by updating parameter values using a recursive Bayesian design that responds to 1 day-ahead forecast errors while also accounting for observational noise. The estimated time series of rating curve parameters can then be used to diagnose multiscale (daily-decadal) variability in sediment yield after accounting for fluctuations in streamflow. The technique is applied in a case study examining changes in turbidity load, a proxy for sediment load, in the Esopus Creek watershed, part of the New York City drinking water supply system. The results show that turbidity load exhibits a complex array of variability across time scales. The DLM highlights flood event-driven positive hysteresis, where turbidity load remained elevated for months after large flood events, as a major component of dynamic behavior in the rating curve relationship. The DLM also produces more accurate 1 day-ahead loading forecasts compared to other static and time-varying rating curve methods. The results suggest that DLMs provide a useful tool for diagnosing changes in sediment-discharge relationships over time and may help identify variability in sediment concentrations and loads that can be used to inform dynamic water quality management.

  20. Transformer Model in Wide Frequency Bandwidth for Power Electronics Systems

    Directory of Open Access Journals (Sweden)

    Carlos Gonzalez-Garcia

    2013-01-01

    Full Text Available The development of the smart grids leads to new challenges on the power electronics equipment and power transformers. The use of power electronic transformer presents several advantages, but new problems related with the application of high frequency voltage and current components come across. Thus, an accurate knowledge of the transformer behavior in a wide frequency range is mandatory. A novel modeling procedure to relate the transformer physical behavior and its frequency response by means of electrical parameters is presented. Its usability is demonstrated by an example where a power transformer is used as filter and voltage reducer in an AC-DC-AC converter.

  1. Block Empirical Likelihood for Longitudinal Single-Index Varying-Coefficient Model

    Directory of Open Access Journals (Sweden)

    Yunquan Song

    2013-01-01

    Full Text Available In this paper, we consider a single-index varying-coefficient model with application to longitudinal data. In order to accommodate the within-group correlation, we apply the block empirical likelihood procedure to longitudinal single-index varying-coefficient model, and prove a nonparametric version of Wilks’ theorem which can be used to construct the block empirical likelihood confidence region with asymptotically correct coverage probability for the parametric component. In comparison with normal approximations, the proposed method does not require a consistent estimator for the asymptotic covariance matrix, making it easier to conduct inference for the model's parametric component. Simulations demonstrate how the proposed method works.

  2. Perfect fluid Bianchi Type-I cosmological models with time varying G ...

    Indian Academy of Sciences (India)

    Bianchi Type-I cosmological models containing perfect fluid with time varying and have been presented. The solutions obtained represent an expansion scalar bearing a constant ratio to the anisotropy in the direction of space-like unit vector . Of the two models obtained, one has negative vacuum energy density, ...

  3. Perfect fluid Bianchi Type-I cosmological models with time varying G ...

    Indian Academy of Sciences (India)

    Abstract. Bianchi Type-I cosmological models containing perfect fluid with time vary- ing G and Λ have been presented. The solutions obtained represent an expansion scalar θ bearing a constant ratio to the anisotropy in the direction of space-like unit vector λi. Of the two models obtained, one has negative vacuum energy ...

  4. Time-varying effect models for ordinal responses with applications in substance abuse research.

    Science.gov (United States)

    Dziak, John J; Li, Runze; Zimmerman, Marc A; Buu, Anne

    2014-12-20

    Ordinal responses are very common in longitudinal data collected from substance abuse research or other behavioral research. This study develops a new statistical model with free SAS macros that can be applied to characterize time-varying effects on ordinal responses. Our simulation study shows that the ordinal-scale time-varying effects model has very low estimation bias and sometimes offers considerably better performance when fitting data with ordinal responses than a model that treats the response as continuous. Contrary to a common assumption that an ordinal scale with several levels can be treated as continuous, our results indicate that it is not so much the number of levels on the ordinal scale but rather the skewness of the distribution that makes a difference on relative performance of linear versus ordinal models. We use longitudinal data from a well-known study on youth at high risk for substance abuse as a motivating example to demonstrate that the proposed model can characterize the time-varying effect of negative peer influences on alcohol use in a way that is more consistent with the developmental theory and existing literature, in comparison with the linear time-varying effect model. Copyright © 2014 John Wiley & Sons, Ltd.

  5. Modeling of Electricity Demand for Azerbaijan: Time-Varying Coefficient Cointegration Approach

    Directory of Open Access Journals (Sweden)

    Jeyhun I. Mikayilov

    2017-11-01

    Full Text Available Recent literature has shown that electricity demand elasticities may not be constant over time and this has investigated using time-varying estimation methods. As accurate modeling of electricity demand is very important in Azerbaijan, which is a transitional country facing significant change in its economic outlook, we analyze whether the response of electricity demand to income and price is varying over time in this economy. We employed the Time-Varying Coefficient cointegration approach, a cutting-edge time-varying estimation method. We find evidence that income elasticity demonstrates sizeable variation for the period of investigation ranging from 0.48% to 0.56%. The study has some useful policy implications related to the income and price aspects of the electricity consumption in Azerbaijan.

  6. Time-varying boundaries for diffusion models of decision making and response time

    NARCIS (Netherlands)

    Zhang, S.; Lee, M.D.; Vandekerckhove, J.; Maris, G.; Wagenmakers, E.-J.

    2014-01-01

    Diffusion models are widely-used and successful accounts of the time course of two-choice decision making. Most diffusion models assume constant boundaries, which are the threshold levels of evidence that must be sampled from a stimulus to reach a decision. We summarize theoretical results from

  7. Visualisation of time-varying respiratory system elastance in experimental ARDS animal models.

    Science.gov (United States)

    van Drunen, Erwin J; Chiew, Yeong Shiong; Pretty, Christopher; Shaw, Geoffrey M; Lambermont, Bernard; Janssen, Nathalie; Chase, J Geoffrey; Desaive, Thomas

    2014-03-02

    Patients with acute respiratory distress syndrome (ARDS) risk lung collapse, severely altering the breath-to-breath respiratory mechanics. Model-based estimation of respiratory mechanics characterising patient-specific condition and response to treatment may be used to guide mechanical ventilation (MV). This study presents a model-based approach to monitor time-varying patient-ventilator interaction to guide positive end expiratory pressure (PEEP) selection. The single compartment lung model was extended to monitor dynamic time-varying respiratory system elastance, Edrs, within each breathing cycle. Two separate animal models were considered, each consisting of three fully sedated pure pietrain piglets (oleic acid ARDS and lavage ARDS). A staircase recruitment manoeuvre was performed on all six subjects after ARDS was induced. The Edrs was mapped across each breathing cycle for each subject. Six time-varying, breath-specific Edrs maps were generated, one for each subject. Each Edrs map shows the subject-specific response to mechanical ventilation (MV), indicating the need for a model-based approach to guide MV. This method of visualisation provides high resolution insight into the time-varying respiratory mechanics to aid clinical decision making. Using the Edrs maps, minimal time-varying elastance was identified, which can be used to select optimal PEEP. Real-time continuous monitoring of in-breath mechanics provides further insight into lung physiology. Therefore, there is potential for this new monitoring method to aid clinicians in guiding MV treatment. These are the first such maps generated and they thus show unique results in high resolution. The model is limited to a constant respiratory resistance throughout inspiration which may not be valid in some cases. However, trends match clinical expectation and the results highlight both the subject-specificity of the model, as well as significant inter-subject variability.

  8. Applicability of common stomatal conductance models in maize under varying soil moisture conditions.

    Science.gov (United States)

    Wang, Qiuling; He, Qijin; Zhou, Guangsheng

    2018-07-01

    In the context of climate warming, the varying soil moisture caused by precipitation pattern change will affect the applicability of stomatal conductance models, thereby affecting the simulation accuracy of carbon-nitrogen-water cycles in ecosystems. We studied the applicability of four common stomatal conductance models including Jarvis, Ball-Woodrow-Berry (BWB), Ball-Berry-Leuning (BBL) and unified stomatal optimization (USO) models based on summer maize leaf gas exchange data from a soil moisture consecutive decrease manipulation experiment. The results showed that the USO model performed best, followed by the BBL model, BWB model, and the Jarvis model performed worst under varying soil moisture conditions. The effects of soil moisture made a difference in the relative performance among the models. By introducing a water response function, the performance of the Jarvis, BWB, and USO models improved, which decreased the normalized root mean square error (NRMSE) by 15.7%, 16.6% and 3.9%, respectively; however, the performance of the BBL model was negative, which increased the NRMSE by 5.3%. It was observed that the models of Jarvis, BWB, BBL and USO were applicable within different ranges of soil relative water content (i.e., 55%-65%, 56%-67%, 37%-79% and 37%-95%, respectively) based on the 95% confidence limits. Moreover, introducing a water response function, the applicability of the Jarvis and BWB models improved. The USO model performed best with or without introducing the water response function and was applicable under varying soil moisture conditions. Our results provide a basis for selecting appropriate stomatal conductance models under drought conditions. Copyright © 2018 Elsevier B.V. All rights reserved.

  9. Artificial neural network modeling of DDGS flowability with varying process and storage parameters

    Science.gov (United States)

    Neural Network (NN) modeling techniques were used to predict flowability behavior in distillers dried grains with solubles (DDGS) prepared with varying CDS (10, 15, and 20%, wb), drying temperature (100, 200, and 300°C), cooling temperature (-12, 0, and 35°C) and cooling time (0 and 1 month) levels....

  10. Modeling the Time-Varying Nature of Student Exceptionality Classification on Achievement Growth

    Science.gov (United States)

    Nese, Joseph F. T.; Stevens, Joseph J.; Schulte, Ann C.; Tindal, Gerald; Elliott, Stephen N.

    2017-01-01

    Our purpose was to examine different approaches to modeling the time-varying nature of exceptionality classification. Using longitudinal data from one state's mathematics achievement test for 28,829 students in Grades 3 to 8, we describe the reclassification rate within special education and between general and special education, and compare four…

  11. Linearity Testing in Time-Varying Smooth Transition Autoregressive Models under Unknown Degree of Persistency

    DEFF Research Database (Denmark)

    Sandberg, Rickard; Kruse, Robinson

    Building upon the work of Vogelsang (1998) and Harvey and Leybourne (2007) we derive tests that are invariant to the order of integration when the null hypothesis of linearity is tested in time-varying smooth transition models. As heteroscedasticity may lead to spurious rejections of the null...

  12. Time-varying coefficient estimation in SURE models. Application to portfolio management

    DEFF Research Database (Denmark)

    Casas, Isabel; Ferreira, Eva; Orbe, Susan

    This paper provides a detailed analysis of the asymptotic properties of a kernel estimator for a Seemingly Unrelated Regression Equations model with time-varying coefficients (tv-SURE) under very general conditions. Theoretical results together with a simulation study differentiates the cases for...

  13. The estimation of time-varying risks in asset pricing modelling using B-Spline method

    Science.gov (United States)

    Nurjannah; Solimun; Rinaldo, Adji

    2017-12-01

    Asset pricing modelling has been extensively studied in the past few decades to explore the risk-return relationship. The asset pricing literature typically assumed a static risk-return relationship. However, several studies found few anomalies in the asset pricing modelling which captured the presence of the risk instability. The dynamic model is proposed to offer a better model. The main problem highlighted in the dynamic model literature is that the set of conditioning information is unobservable and therefore some assumptions have to be made. Hence, the estimation requires additional assumptions about the dynamics of risk. To overcome this problem, the nonparametric estimators can also be used as an alternative for estimating risk. The flexibility of the nonparametric setting avoids the problem of misspecification derived from selecting a functional form. This paper investigates the estimation of time-varying asset pricing model using B-Spline, as one of nonparametric approach. The advantages of spline method is its computational speed and simplicity, as well as the clarity of controlling curvature directly. The three popular asset pricing models will be investigated namely CAPM (Capital Asset Pricing Model), Fama-French 3-factors model and Carhart 4-factors model. The results suggest that the estimated risks are time-varying and not stable overtime which confirms the risk instability anomaly. The results is more pronounced in Carhart’s 4-factors model.

  14. A hepatitis C virus infection model with time-varying drug effectiveness: solution and analysis.

    Directory of Open Access Journals (Sweden)

    Jessica M Conway

    2014-08-01

    Full Text Available Simple models of therapy for viral diseases such as hepatitis C virus (HCV or human immunodeficiency virus assume that, once therapy is started, the drug has a constant effectiveness. More realistic models have assumed either that the drug effectiveness depends on the drug concentration or that the effectiveness varies over time. Here a previously introduced varying-effectiveness (VE model is studied mathematically in the context of HCV infection. We show that while the model is linear, it has no closed-form solution due to the time-varying nature of the effectiveness. We then show that the model can be transformed into a Bessel equation and derive an analytic solution in terms of modified Bessel functions, which are defined as infinite series, with time-varying arguments. Fitting the solution to data from HCV infected patients under therapy has yielded values for the parameters in the model. We show that for biologically realistic parameters, the predicted viral decay on therapy is generally biphasic and resembles that predicted by constant-effectiveness (CE models. We introduce a general method for determining the time at which the transition between decay phases occurs based on calculating the point of maximum curvature of the viral decay curve. For the parameter regimes of interest, we also find approximate solutions for the VE model and establish the asymptotic behavior of the system. We show that the rate of second phase decay is determined by the death rate of infected cells multiplied by the maximum effectiveness of therapy, whereas the rate of first phase decline depends on multiple parameters including the rate of increase of drug effectiveness with time.

  15. Thermodynamic Property Model of Wide-Fluid Phase Propane

    Directory of Open Access Journals (Sweden)

    I Made Astina

    2007-05-01

    Full Text Available A new thermodynamic property model for propane is expressed in form of the Helmholtz free energy function. It consists of eight terms of the ideal-gas part and eighteen terms of the residual part. Accurate experimental data of fluid properties and theoretical approach from the intermolecular potential were simultaneously considered in the development to insure accuracy and to improve reliability of the equation of state over wide range of pressures and temperatures. Based on the state range of experimental data used in the model development, the validity range is judged from the triple-point of 85.48 K to temperature of 450 K and pressure up to 60 MPa. The uncertainties with respect to different properties are estimated to be 0.03% in ideal-gas isobaric specific heat, 0.2% in liquid phase density, 0.3% in gaseous phase density 1% in specific heats, 0.1% in vapor-pressure except at very low temperatures, 0.05% in saturated-liquid density, 0.02% in speed of sound of the gaseous phase and 1% in speed of sound of the liquid phase.

  16. Modelling Conditional and Unconditional Heteroskedasticity with Smoothly Time-Varying Structure

    DEFF Research Database (Denmark)

    Amado, Christina; Teräsvirta, Timo

    in the conditional and unconditional variances where the transition between regimes over time is smooth. A modelling strategy for these new time-varying parameter GARCH models is developed. It relies on a sequence of Lagrange multiplier tests, and the adequacy of the estimated models is investigated by Lagrange...... multiplier type misspecification tests. Finite-sample properties of these procedures and tests are examined by simulation. An empirical application to daily stock returns and another one to daily exchange rate returns illustrate the functioning and properties of our modelling strategy in practice...

  17. Time-varying respiratory system elastance: a physiological model for patients who are spontaneously breathing.

    Science.gov (United States)

    Chiew, Yeong Shiong; Pretty, Christopher; Docherty, Paul D; Lambermont, Bernard; Shaw, Geoffrey M; Desaive, Thomas; Chase, J Geoffrey

    2015-01-01

    Respiratory mechanics models can aid in optimising patient-specific mechanical ventilation (MV), but the applications are limited to fully sedated MV patients who have little or no spontaneously breathing efforts. This research presents a time-varying elastance (E(drs)) model that can be used in spontaneously breathing patients to determine their respiratory mechanics. A time-varying respiratory elastance model is developed with a negative elastic component (E(demand)), to describe the driving pressure generated during a patient initiated breathing cycle. Data from 22 patients who are partially mechanically ventilated using Pressure Support (PS) and Neurally Adjusted Ventilatory Assist (NAVA) are used to investigate the physiology relevance of the time-varying elastance model and its clinical potential. E(drs) of every breathing cycle for each patient at different ventilation modes are presented for comparison. At the start of every breathing cycle initiated by patient, E(drs) is 25 cmH2Os/l and thus can be used as an acute respiratory distress syndrome (ARDS) severity indicator. The E(drs) model captures unique dynamic respiratory mechanics for spontaneously breathing patients with respiratory failure. The model is fully general and is applicable to both fully controlled and partially assisted MV modes.

  18. Time-varying respiratory system elastance: a physiological model for patients who are spontaneously breathing.

    Directory of Open Access Journals (Sweden)

    Yeong Shiong Chiew

    Full Text Available BACKGROUND: Respiratory mechanics models can aid in optimising patient-specific mechanical ventilation (MV, but the applications are limited to fully sedated MV patients who have little or no spontaneously breathing efforts. This research presents a time-varying elastance (E(drs model that can be used in spontaneously breathing patients to determine their respiratory mechanics. METHODS: A time-varying respiratory elastance model is developed with a negative elastic component (E(demand, to describe the driving pressure generated during a patient initiated breathing cycle. Data from 22 patients who are partially mechanically ventilated using Pressure Support (PS and Neurally Adjusted Ventilatory Assist (NAVA are used to investigate the physiology relevance of the time-varying elastance model and its clinical potential. E(drs of every breathing cycle for each patient at different ventilation modes are presented for comparison. RESULTS: At the start of every breathing cycle initiated by patient, E(drs is 25 cmH2Os/l and thus can be used as an acute respiratory distress syndrome (ARDS severity indicator. CONCLUSION: The E(drs model captures unique dynamic respiratory mechanics for spontaneously breathing patients with respiratory failure. The model is fully general and is applicable to both fully controlled and partially assisted MV modes.

  19. Modeling and Analysis of a Piezoelectric Energy Harvester with Varying Cross-Sectional Area

    Directory of Open Access Journals (Sweden)

    Maiara Rosa

    2014-01-01

    Full Text Available This paper reports on the modeling and on the experimental verification of electromechanically coupled beams with varying cross-sectional area for piezoelectric energy harvesting. The governing equations are formulated using the Rayleigh-Ritz method and Euler-Bernoulli assumptions. A load resistance is considered in the electrical domain for the estimate of the electric power output of each geometric configuration. The model is first verified against the analytical results for a rectangular bimorph with tip mass reported in the literature. The experimental verification of the model is also reported for a tapered bimorph cantilever with tip mass. The effects of varying cross-sectional area and tip mass on the electromechanical behavior of piezoelectric energy harvesters are also discussed. An issue related to the estimation of the optimal load resistance (that gives the maximum power output on beam shape optimization problems is also discussed.

  20. New Inference Procedures for Semiparametric Varying-Coefficient Partially Linear Cox Models

    Directory of Open Access Journals (Sweden)

    Yunbei Ma

    2014-01-01

    Full Text Available In biomedical research, one major objective is to identify risk factors and study their risk impacts, as this identification can help clinicians to both properly make a decision and increase efficiency of treatments and resource allocation. A two-step penalized-based procedure is proposed to select linear regression coefficients for linear components and to identify significant nonparametric varying-coefficient functions for semiparametric varying-coefficient partially linear Cox models. It is shown that the penalized-based resulting estimators of the linear regression coefficients are asymptotically normal and have oracle properties, and the resulting estimators of the varying-coefficient functions have optimal convergence rates. A simulation study and an empirical example are presented for illustration.

  1. From calls to communities: a model for time-varying social networks

    Science.gov (United States)

    Laurent, Guillaume; Saramäki, Jari; Karsai, Márton

    2015-11-01

    Social interactions vary in time and appear to be driven by intrinsic mechanisms that shape the emergent structure of social networks. Large-scale empirical observations of social interaction structure have become possible only recently, and modelling their dynamics is an actual challenge. Here we propose a temporal network model which builds on the framework of activity-driven time-varying networks with memory. The model integrates key mechanisms that drive the formation of social ties - social reinforcement, focal closure and cyclic closure, which have been shown to give rise to community structure and small-world connectedness in social networks. We compare the proposed model with a real-world time-varying network of mobile phone communication, and show that they share several characteristics from heterogeneous degrees and weights to rich community structure. Further, the strong and weak ties that emerge from the model follow similar weight-topology correlations as real-world social networks, including the role of weak ties.

  2. Sensorless Modeling of Varying Pulse Width Modulator Resolutions in Three-Phase Induction Motors.

    Science.gov (United States)

    Marko, Matthew David; Shevach, Glenn

    2017-01-01

    A sensorless algorithm was developed to predict rotor speeds in an electric three-phase induction motor. This sensorless model requires a measurement of the stator currents and voltages, and the rotor speed is predicted accurately without any mechanical measurement of the rotor speed. A model of an electric vehicle undergoing acceleration was built, and the sensorless prediction of the simulation rotor speed was determined to be robust even in the presence of fluctuating motor parameters and significant sensor errors. Studies were conducted for varying pulse width modulator resolutions, and the sensorless model was accurate for all resolutions of sinusoidal voltage functions.

  3. Fitting Social Network Models Using Varying Truncation Stochastic Approximation MCMC Algorithm

    KAUST Repository

    Jin, Ick Hoon

    2013-10-01

    The exponential random graph model (ERGM) plays a major role in social network analysis. However, parameter estimation for the ERGM is a hard problem due to the intractability of its normalizing constant and the model degeneracy. The existing algorithms, such as Monte Carlo maximum likelihood estimation (MCMLE) and stochastic approximation, often fail for this problem in the presence of model degeneracy. In this article, we introduce the varying truncation stochastic approximation Markov chain Monte Carlo (SAMCMC) algorithm to tackle this problem. The varying truncation mechanism enables the algorithm to choose an appropriate starting point and an appropriate gain factor sequence, and thus to produce a reasonable parameter estimate for the ERGM even in the presence of model degeneracy. The numerical results indicate that the varying truncation SAMCMC algorithm can significantly outperform the MCMLE and stochastic approximation algorithms: for degenerate ERGMs, MCMLE and stochastic approximation often fail to produce any reasonable parameter estimates, while SAMCMC can do; for nondegenerate ERGMs, SAMCMC can work as well as or better than MCMLE and stochastic approximation. The data and source codes used for this article are available online as supplementary materials. © 2013 American Statistical Association, Institute of Mathematical Statistics, and Interface Foundation of North America.

  4. Continuous time modelling with individually varying time intervals for oscillating and non-oscillating processes.

    Science.gov (United States)

    Voelkle, Manuel C; Oud, Johan H L

    2013-02-01

    When designing longitudinal studies, researchers often aim at equal intervals. In practice, however, this goal is hardly ever met, with different time intervals between assessment waves and different time intervals between individuals being more the rule than the exception. One of the reasons for the introduction of continuous time models by means of structural equation modelling has been to deal with irregularly spaced assessment waves (e.g., Oud & Delsing, 2010). In the present paper we extend the approach to individually varying time intervals for oscillating and non-oscillating processes. In addition, we show not only that equal intervals are unnecessary but also that it can be advantageous to use unequal sampling intervals, in particular when the sampling rate is low. Two examples are provided to support our arguments. In the first example we compare a continuous time model of a bivariate coupled process with varying time intervals to a standard discrete time model to illustrate the importance of accounting for the exact time intervals. In the second example the effect of different sampling intervals on estimating a damped linear oscillator is investigated by means of a Monte Carlo simulation. We conclude that it is important to account for individually varying time intervals, and encourage researchers to conceive of longitudinal studies with different time intervals within and between individuals as an opportunity rather than a problem. © 2012 The British Psychological Society.

  5. A special case of reduced rank models for identification and modelling of time varying effects in survival analysis.

    Science.gov (United States)

    Perperoglou, Aris

    2016-12-10

    Flexible survival models are in need when modelling data from long term follow-up studies. In many cases, the assumption of proportionality imposed by a Cox model will not be valid. Instead, a model that can identify time varying effects of fixed covariates can be used. Although there are several approaches that deal with this problem, it is not always straightforward how to choose which covariates should be modelled having time varying effects and which not. At the same time, it is up to the researcher to define appropriate time functions that describe the dynamic pattern of the effects. In this work, we suggest a model that can deal with both fixed and time varying effects and uses simple hypotheses tests to distinguish which covariates do have dynamic effects. The model is an extension of the parsimonious reduced rank model of rank 1. As such, the number of parameters is kept low, and thus, a flexible set of time functions, such as b-splines, can be used. The basic theory is illustrated along with an efficient fitting algorithm. The proposed method is applied to a dataset of breast cancer patients and compared with a multivariate fractional polynomials approach for modelling time-varying effects. Copyright © 2016 John Wiley & Sons, Ltd. Copyright © 2016 John Wiley & Sons, Ltd.

  6. A river water quality model for time varying BOD discharge concentration

    Directory of Open Access Journals (Sweden)

    Oppenheimer Seth F.

    1999-01-01

    Full Text Available We consider a model for biochemical oxygen demand (BOD in a semi-infinite river where the BOD is prescribed by a time varying function at the left endpoint. That is, we study the problem with a time varying boundary loading. We obtain the well-posedness for the model when the boundary loading is smooth in time. We also obtain various qualitative results such as ordering, positivity, and boundedness. Of greatest interest, we show that a periodic loading function admits a unique asymptotically attracting periodic solution. For non-smooth loading functions, we obtain weak solutions. Finally, for certain special cases, we show how to obtain explicit solutions in the form of infinite series.

  7. Modelling seasonal habitat suitability for wide-ranging species: Invasive wild pigs in northern Australia.

    Science.gov (United States)

    Froese, Jens G; Smith, Carl S; Durr, Peter A; McAlpine, Clive A; van Klinken, Rieks D

    2017-01-01

    Invasive wildlife often causes serious damage to the economy and agriculture as well as environmental, human and animal health. Habitat models can fill knowledge gaps about species distributions and assist planning to mitigate impacts. Yet, model accuracy and utility may be compromised by small study areas and limited integration of species ecology or temporal variability. Here we modelled seasonal habitat suitability for wild pigs, a widespread and harmful invader, in northern Australia. We developed a resource-based, spatially-explicit and regional-scale approach using Bayesian networks and spatial pattern suitability analysis. We integrated important ecological factors such as variability in environmental conditions, breeding requirements and home range movements. The habitat model was parameterized during a structured, iterative expert elicitation process and applied to a wet season and a dry season scenario. Model performance and uncertainty was evaluated against independent distributional data sets. Validation results showed that an expert-averaged model accurately predicted empirical wild pig presences in northern Australia for both seasonal scenarios. Model uncertainty was largely associated with different expert assumptions about wild pigs' resource-seeking home range movements. Habitat suitability varied considerably between seasons, retracting to resource-abundant rainforest, wetland and agricultural refuge areas during the dry season and expanding widely into surrounding grassland floodplains, savanna woodlands and coastal shrubs during the wet season. Overall, our model suggested that suitable wild pig habitat is less widely available in northern Australia than previously thought. Mapped results may be used to quantify impacts, assess risks, justify management investments and target control activities. Our methods are applicable to other wide-ranging species, especially in data-poor situations.

  8. Modelling of coupled heat and electric field distribution during ohmic heating of solid foods with varying sizes

    DEFF Research Database (Denmark)

    Feyissa, Aberham Hailu; Bøknæs, Niels; Nielsen, P.L.

    Heat treatment is an important process in the manufacturing of a wide range of solid foods. When food products of different sizes (e.g. cooking of shrimps) are processed with the conventional thermal processes, the products are heated unevenly where the small bodies are overcooked and the large...... bodies are undercooked. Ohmic heating (OH) is one of the novel technologies potentially solving this problem. However, the ability to predict and optimize the resulting temperature profile in solid foods processed by OH rests on a better understanding of the fundamental aspects of OH and of the physical...... factors leading to variations and uncertainties in prediction of the right process parameters. The current work is focused on modelling of OH of solid food pieces of varying sizes cooked in one batch. A 3D mathematical model of coupled heat transfer and electric field during OH of shrimps has been...

  9. Varying Coefficient Panel Data Model in the Presence of Endogenous Selectivity and Fixed Effects

    OpenAIRE

    Malikov, Emir; Kumbhakar, Subal C.; Sun, Yiguo

    2013-01-01

    This paper considers a flexible panel data sample selection model in which (i) the outcome equation is permitted to take a semiparametric, varying coefficient form to capture potential parameter heterogeneity in the relationship of interest, (ii) both the outcome and (parametric) selection equations contain unobserved fixed effects and (iii) selection is generalized to a polychotomous case. We propose a two-stage estimator. Given consistent parameter estimates from the selection equation obta...

  10. Modeling Latin-American stock markets volatility: Varying probabilities and mean reversion in a random level shift model

    Directory of Open Access Journals (Sweden)

    Gabriel Rodríguez

    2016-06-01

    Full Text Available Following Xu and Perron (2014, I applied the extended RLS model to the daily stock market returns of Argentina, Brazil, Chile, Mexico and Peru. This model replaces the constant probability of level shifts for the entire sample with varying probabilities that record periods with extremely negative returns. Furthermore, it incorporates a mean reversion mechanism with which the magnitude and the sign of the level shift component vary in accordance with past level shifts that deviate from the long-term mean. Therefore, four RLS models are estimated: the Basic RLS, the RLS with varying probabilities, the RLS with mean reversion, and a combined RLS model with mean reversion and varying probabilities. The results show that the estimated parameters are highly significant, especially that of the mean reversion model. An analysis of ARFIMA and GARCH models is also performed in the presence of level shifts, which shows that once these shifts are taken into account in the modeling, the long memory characteristics and GARCH effects disappear. Also, I find that the performance prediction of the RLS models is superior to the classic models involving long memory as the ARFIMA(p,d,q models, the GARCH and the FIGARCH models. The evidence indicates that except in rare exceptions, the RLS models (in all its variants are showing the best performance or belong to the 10% of the Model Confidence Set (MCS. On rare occasions the GARCH and the ARFIMA models appear to dominate but they are rare exceptions. When the volatility is measured by the squared returns, the great exception is Argentina where a dominance of GARCH and FIGARCH models is appreciated.

  11. SEIR Model of Rumor Spreading in Online Social Network with Varying Total Population Size

    Science.gov (United States)

    Dong, Suyalatu; Deng, Yan-Bin; Huang, Yong-Chang

    2017-10-01

    Based on the infectious disease model with disease latency, this paper proposes a new model for the rumor spreading process in online social network. In this paper what we establish an SEIR rumor spreading model to describe the online social network with varying total number of users and user deactivation rate. We calculate the exact equilibrium points and reproduction number for this model. Furthermore, we perform the rumor spreading process in the online social network with increasing population size based on the original real world Facebook network. The simulation results indicate that the SEIR model of rumor spreading in online social network with changing total number of users can accurately reveal the inherent characteristics of rumor spreading process in online social network. Supported by National Natural Science Foundation of China under Grant Nos. 11275017 and 11173028

  12. Using video modeling with substitutable loops to teach varied play to children with autism.

    Science.gov (United States)

    Dupere, Sally; MacDonald, Rebecca P F; Ahearn, William H

    2013-01-01

    Children with autism often engage in repetitive play with little variation in the actions performed or items used. This study examined the use of video modeling with scripted substitutable loops on children's pretend play with trained and untrained characters. Three young children with autism were shown a video model of scripted toy play that included a substitutable loop that allowed various characters to perform the same actions and vocalizations. Three characters were modeled with the substitutable loop during training sessions, and 3 additional characters were present in the video but never modeled. Following video modeling, all the participants incorporated untrained characters into their play, but the extent to which they did so varied. © Society for the Experimental Analysis of Behavior.

  13. SEIR Model of Rumor Spreading in Online Social Network with Varying Total Population Size

    International Nuclear Information System (INIS)

    Dong Suyalatu; Deng Yan-Bin; Huang Yong-Chang

    2017-01-01

    Based on the infectious disease model with disease latency, this paper proposes a new model for the rumor spreading process in online social network. In this paper what we establish an SEIR rumor spreading model to describe the online social network with varying total number of users and user deactivation rate. We calculate the exact equilibrium points and reproduction number for this model. Furthermore, we perform the rumor spreading process in the online social network with increasing population size based on the original real world Facebook network. The simulation results indicate that the SEIR model of rumor spreading in online social network with changing total number of users can accurately reveal the inherent characteristics of rumor spreading process in online social network . (paper)

  14. Cox models with dynamic ridge penalties on time-varying effects of the covariates.

    Science.gov (United States)

    Perperoglou, Aris

    2014-01-15

    Analysis of long-term follow-up survival studies require more sophisticated approaches than the proportional hazards model. To account for the dynamic behaviour of fixed covariates, penalized Cox models can be employed in models with interactions of the covariates and known time functions. In this work, I discuss some of the suggested methods and emphasize on the use of a ridge penalty in survival models. I review different strategies for choosing an optimal penalty weight and argue for the use of the computationally efficient restricted maximum likelihood (REML)-type method. A ridge penalty term can be subtracted from the likelihood when modelling time-varying effects in order to control the behaviour of the time functions. I suggest using flexible time functions such as B-splines and constrain the behaviour of these by adding proper penalties. I present the basic methods and illustrate different penalty weights in two different datasets. Copyright © 2013 John Wiley & Sons, Ltd.

  15. Identification of Affine Linear Parameter Varying Models for Adaptive Interventions in Fibromyalgia Treatment.

    Science.gov (United States)

    Dos Santos, P Lopes; Deshpande, Sunil; Rivera, Daniel E; Azevedo-Perdicoúlis, T-P; Ramos, J A; Younger, Jarred

    2013-12-31

    There is good evidence that naltrexone, an opioid antagonist, has a strong neuroprotective role and may be a potential drug for the treatment of fibromyalgia. In previous work, some of the authors used experimental clinical data to identify input-output linear time invariant models that were used to extract useful information about the effect of this drug on fibromyalgia symptoms. Additional factors such as anxiety, stress, mood, and headache, were considered as additive disturbances. However, it seems reasonable to think that these factors do not affect the drug actuation, but only the way in which a participant perceives how the drug actuates on herself. Under this hypothesis the linear time invariant models can be replaced by State-Space Affine Linear Parameter Varying models where the disturbances are seen as a scheduling signal signal only acting at the parameters of the output equation. In this paper a new algorithm for identifying such a model is proposed. This algorithm minimizes a quadratic criterion of the output error. Since the output error is a linear function of some parameters, the Affine Linear Parameter Varying system identification is formulated as a separable nonlinear least squares problem. Likewise other identification algorithms using gradient optimization methods several parameter derivatives are dynamical systems that must be simulated. In order to increase time efficiency a canonical parametrization that minimizes the number of systems to be simulated is chosen. The effectiveness of the algorithm is assessed in a case study where an Affine Parameter Varying Model is identified from the experimental data used in the previous study and compared with the time-invariant model.

  16. Spatially-varying surface roughness and ground-level air quality in an operational dispersion model

    International Nuclear Information System (INIS)

    Barnes, M.J.; Brade, T.K.; MacKenzie, A.R.; Whyatt, J.D.; Carruthers, D.J.; Stocker, J.; Cai, X.; Hewitt, C.N.

    2014-01-01

    Urban form controls the overall aerodynamic roughness of a city, and hence plays a significant role in how air flow interacts with the urban landscape. This paper reports improved model performance resulting from the introduction of variable surface roughness in the operational air-quality model ADMS-Urban (v3.1). We then assess to what extent pollutant concentrations can be reduced solely through local reductions in roughness. The model results suggest that reducing surface roughness in a city centre can increase ground-level pollutant concentrations, both locally in the area of reduced roughness and downwind of that area. The unexpected simulation of increased ground-level pollutant concentrations implies that this type of modelling should be used with caution for urban planning and design studies looking at ventilation of pollution. We expect the results from this study to be relevant for all atmospheric dispersion models with urban-surface parameterisations based on roughness. -- Highlights: • Spatially variable roughness improved performance of an operational model. • Scenario modelling explored effect of reduced roughness on air pollution. • Reducing surface roughness can increase modelled ground-level pollution. • Damped vertical mixing outweighs increased horizontal advection in model study. • Result should hold for any model with a land-surface coupling based on roughness. -- Spatially varying roughness improves model simulations of urban air pollutant dispersion. Reducing roughness does not always decrease ground-level pollution concentrations

  17. LiDAR based prediction of forest biomass using hierarchical models with spatially varying coefficients

    Science.gov (United States)

    Babcock, Chad; Finley, Andrew O.; Bradford, John B.; Kolka, Randall K.; Birdsey, Richard A.; Ryan, Michael G.

    2015-01-01

    Many studies and production inventory systems have shown the utility of coupling covariates derived from Light Detection and Ranging (LiDAR) data with forest variables measured on georeferenced inventory plots through regression models. The objective of this study was to propose and assess the use of a Bayesian hierarchical modeling framework that accommodates both residual spatial dependence and non-stationarity of model covariates through the introduction of spatial random effects. We explored this objective using four forest inventory datasets that are part of the North American Carbon Program, each comprising point-referenced measures of above-ground forest biomass and discrete LiDAR. For each dataset, we considered at least five regression model specifications of varying complexity. Models were assessed based on goodness of fit criteria and predictive performance using a 10-fold cross-validation procedure. Results showed that the addition of spatial random effects to the regression model intercept improved fit and predictive performance in the presence of substantial residual spatial dependence. Additionally, in some cases, allowing either some or all regression slope parameters to vary spatially, via the addition of spatial random effects, further improved model fit and predictive performance. In other instances, models showed improved fit but decreased predictive performance—indicating over-fitting and underscoring the need for cross-validation to assess predictive ability. The proposed Bayesian modeling framework provided access to pixel-level posterior predictive distributions that were useful for uncertainty mapping, diagnosing spatial extrapolation issues, revealing missing model covariates, and discovering locally significant parameters.

  18. Modelling basin-wide variations in Amazon forest photosynthesis

    Science.gov (United States)

    Mercado, Lina; Lloyd, Jon; Domingues, Tomas; Fyllas, Nikolaos; Patino, Sandra; Dolman, Han; Sitch, Stephen

    2010-05-01

    Given the importance of Amazon rainforest in the global carbon and hydrological cycles, there is a need to use parameterized and validated ecosystem gas exchange and vegetation models for this region in order to adequately simulate present and future carbon and water balances. Recent research has found major differences in above-ground net primary productivity (ANPP), above ground biomass and tree dynamics across Amazonia. West Amazonia is more dynamic, with younger trees, higher stem growth rates and lower biomass than central and eastern Amazon (Baker et al. 2004; Malhi et al. 2004; Phillips et al. 2004). A factor of three variation in above-ground net primary productivity has been estimated across Amazonia by Malhi et al. (2004). Different hypotheses have been proposed to explain the observed spatial variability in ANPP (Malhi et al. 2004). First, due to the proximity to the Andes, sites from western Amazonia tend to have richer soils than central and eastern Amazon and therefore soil fertility could possibly be highly related to the high wood productivity found in western sites. Second, if GPP does not vary across the Amazon basin then different patterns of carbon allocation to respiration could also explain the observed ANPP gradient. However since plant growth depends on the interaction between photosynthesis, transport of assimilates, plant respiration, water relations and mineral nutrition, variations in plant gross photosynthesis (GPP) could also explain the observed variations in ANPP. In this study we investigate whether Amazon GPP can explain variations of observed ANPP. We use a sun and shade canopy gas exchange model that has been calibrated and evaluated at five rainforest sites (Mercado et al. 2009) to simulate gross primary productivity of 50 sites across the Amazon basin during the period 1980-2001. Such simulation differs from the ones performed with global vegetation models (Cox et al. 1998; Sitch et al. 2003) where i) single plant functional

  19. Dynamics of modified Leslie-Gower-type prey-predator model with seasonally varying parameters

    International Nuclear Information System (INIS)

    Gakkhar, Sunita; Singh, Brahampal

    2006-01-01

    A modified Leslie-Gower-type prey-predator model composed of a logistic prey with Holling's type II functional response is studied. The axial point (1, 0) is found to be globally asymptotically stable in a domain. Condition for stability of the non-trivial equilibrium point is obtained. The existence of stable limit cycle of the system is also established. The analysis for Hopf bifurcation is carried out. The numerical simulations are carried out to study the effects of seasonally varying parameters of the model. The system shows the rich dynamic behavior including bifurcation and chaos

  20. Modeling passive power generation in a temporally-varying temperature environment via thermoelectrics

    International Nuclear Information System (INIS)

    Bomberger, Cory C.; Attia, Peter M.; Prasad, Ajay K.; Zide, Joshua M.O.

    2013-01-01

    This paper presents a model to predict the power generation of a thermoelectric generator in a temporally-varying temperature environment. The model employs a thermoelectric plate sandwiched between two different heat exchangers to convert a temporal temperature gradient in the environment to a spatial temperature gradient within the device suitable for thermoelectric power generation. The two heat exchangers are designed such that their temperatures respond to a change in the environment's temperature at different rates which sets up a temperature differential across the thermoelectric and results in power generation. In this model, radiative and convective heat transfer between the device and its surroundings, and heat flow between the two heat exchangers across the thermoelectric plate are considered. The model is simulated for power generation in Death Valley, CA during the summer using the diurnal variation of air temperature and radiative exchange with the sun and night sky as heat sources and sinks. The optimization of power generation via scaling the device size is discussed. Additional applications of this device are considered. -- Highlights: • Thermoelectric power generation with time-varying temperature is modeled. • The ability to generate power without a natural spatial gradient is demonstrated. • Time dependent heat-transfer and differential heat flow rates are considered. • Optimization of power generation via scaling the device size is discussed

  1. On the role of alkylating mechanisms, O-alkylation and DNA-repair in genotoxicity and mutagenicity of alkylating methanesulfonates of widely varying structures in bacterial systems.

    Science.gov (United States)

    Eder, E; Kütt, W; Deininger, C

    2001-07-31

    The Ames test and the SOS-chromotest are widely used bacterial mutagenicity/genotoxicity assays to test potential carcinogens. Though the molecular mechanisms leading to backmutations and to the induction of SOS-repair are in principle known the role of alkylation mechanisms, of different DNA-lesions and of DNA-repair is in parts still unknown. In this study we investigated 14 monofunctional methanesulfonates of widely varying structures for mutagenicity in Salmonella typhimurium strain TA 1535 sensitive for O(6)-guanine alkylation for comparison with strain TA 100 in order to obtain additional information on the role of alkylation mechanisms, formation of the procarcinogenic DNA-lesion O(6)-alkylguanine and the role of DNA-repair in induction of backmutation. The substances were also tested in the SOS-chromotest with Escherichia coli strain PQ 37 and strain PQ 243 lacking alkyl base glycosylases important for base excision repair in order to examine the role of alkylation mechanisms, of base excision repair and the role of O-alkyl and N-alkyl DNA-lesions on the induction of SOS-repair. The secondary methanesulfonates with very high S(N)1-reactivity isopropyl methanesulfonate and 2-butyl methanesulfonate showed highest mutagenicities in both strains. The higher substituted methanesulfonates with very high S(N)1-reactivity had lower mutagenic activities because of reduced half lives due to their high hydrolysis rates. A clear increase in mutagenicities in strain TA 100 was observed for the primary compounds methyl methanesulfonate and allyl methanesulfonate with very high S(N)2-reactivity. The primary compound phenylethyl methanesulfonate has a relatively high mutagenicity in both Salmonella strains which can be explained by an increased S(N)1-reactivity and by low repair of the O(6)-phenylethylguanine. Highest SOSIPs (SOS inducing potency) in strains PQ 37 and PQ 243 were found for methyl methanesulfonate and for the secondary compounds with high S(N)1-reactivity

  2. Effects of time-varying β in SNLS3 on constraining interacting dark energy models

    International Nuclear Information System (INIS)

    Wang, Shuang; Wang, Yong-Zhen; Geng, Jia-Jia; Zhang, Xin

    2014-01-01

    It has been found that, for the Supernova Legacy Survey three-year (SNLS3) data, there is strong evidence for the redshift evolution of the color-luminosity parameter β. In this paper, adopting the w-cold-dark-matter (wCDM) model and considering its interacting extensions (with three kinds of interaction between dark sectors), we explore the evolution of β and its effects on parameter estimation. In addition to the SNLS3 data, we also use the latest Planck distance priors data, the galaxy clustering data extracted from sloan digital sky survey data release 7 and baryon oscillation spectroscopic survey, as well as the direct measurement of Hubble constant H 0 from the Hubble Space Telescope observation. We find that, for all the interacting dark energy (IDE) models, adding a parameter of β can reduce χ 2 by ∝34, indicating that a constant β is ruled out at 5.8σ confidence level. Furthermore, it is found that varying β can significantly change the fitting results of various cosmological parameters: for all the dark energy models considered in this paper, varying β yields a larger fractional CDM densities Ω c0 and a larger equation of state w; on the other side, varying β yields a smaller reduced Hubble constant h for the wCDM model, but it has no impact on h for the three IDE models. This implies that there is a degeneracy between h and coupling parameter γ. Our work shows that the evolution of β is insensitive to the interaction between dark sectors, and then highlights the importance of considering β's evolution in the cosmology fits. (orig.)

  3. Numerical modeling of shoreline undulations part 2: Varying wave climate and comparison with observations

    DEFF Research Database (Denmark)

    Kærgaard, Kasper Hauberg; Fredsøe, Jørgen

    2013-01-01

    The present work applies the shoreline model from part 1 to a real environment. In part 1, a numerical shoreline model which could handle the development of arbitrarily shaped shorelines was applied to consider the development of shoreline undulations on an unstable shoreline exposed to incoming...... waves with a directional spreading. In this paper, these findings are extended to firstly include the effect of a varying wave climate on the shoreline morphology and secondly, to tune the model to two naturally occurring shorelines. It is found that the effect of a variable wave climate is to slow down...... the development of the morphology and in some cases to inhibit the formation of shore-parallel spits at the crest of the undulations. On one of the natural shorelines, the west coast of Namibia, the shore is exposed to very obliquely waves from one main direction. Here, the shoreline model is able to describe...

  4. Handling Qualities of Model Reference Adaptive Controllers with Varying Complexity for Pitch-Roll Coupled Failures

    Science.gov (United States)

    Schaefer, Jacob; Hanson, Curt; Johnson, Marcus A.; Nguyen, Nhan

    2011-01-01

    Three model reference adaptive controllers (MRAC) with varying levels of complexity were evaluated on a high performance jet aircraft and compared along with a baseline nonlinear dynamic inversion controller. The handling qualities and performance of the controllers were examined during failure conditions that induce coupling between the pitch and roll axes. Results from flight tests showed with a roll to pitch input coupling failure, the handling qualities went from Level 2 with the baseline controller to Level 1 with the most complex MRAC tested. A failure scenario with the left stabilator frozen also showed improvement with the MRAC. Improvement in performance and handling qualities was generally seen as complexity was incrementally added; however, added complexity usually corresponds to increased verification and validation effort required for certification. The tradeoff between complexity and performance is thus important to a controls system designer when implementing an adaptive controller on an aircraft. This paper investigates this relation through flight testing of several controllers of vary complexity.

  5. Visual Predictive Check in Models with Time-Varying Input Function.

    Science.gov (United States)

    Largajolli, Anna; Bertoldo, Alessandra; Campioni, Marco; Cobelli, Claudio

    2015-11-01

    The nonlinear mixed effects models are commonly used modeling techniques in the pharmaceutical research as they enable the characterization of the individual profiles together with the population to which the individuals belong. To ensure a correct use of them is fundamental to provide powerful diagnostic tools that are able to evaluate the predictive performance of the models. The visual predictive check (VPC) is a commonly used tool that helps the user to check by visual inspection if the model is able to reproduce the variability and the main trend of the observed data. However, the simulation from the model is not always trivial, for example, when using models with time-varying input function (IF). In this class of models, there is a potential mismatch between each set of simulated parameters and the associated individual IF which can cause an incorrect profile simulation. We introduce a refinement of the VPC by taking in consideration a correlation term (the Mahalanobis or normalized Euclidean distance) that helps the association of the correct IF with the individual set of simulated parameters. We investigate and compare its performance with the standard VPC in models of the glucose and insulin system applied on real and simulated data and in a simulated pharmacokinetic/pharmacodynamic (PK/PD) example. The newly proposed VPC performance appears to be better with respect to the standard VPC especially for the models with big variability in the IF where the probability of simulating incorrect profiles is higher.

  6. A boundary element model for diffraction of water waves on varying water depth

    Energy Technology Data Exchange (ETDEWEB)

    Poulin, Sanne

    1997-12-31

    In this thesis a boundary element model for calculating diffraction of water waves on varying water depth is presented. The varying water depth is approximated with a perturbed constant depth in the mild-slope wave equation. By doing this, the domain integral which is a result of the varying depth is no longer a function of the unknown wave potential but only a function of position and the constant depth wave potential. The number of unknowns is the resulting system of equations is thus reduced significantly. The integration procedures in the model are tested very thoroughly and it is found that a combination of analytical integration in the singular region and standard numerical integration outside works very well. The gradient of the wave potential is evaluated successfully using a hypersingular integral equation. Deviations from the analytical solution are only found on the boundary or very close to, but these deviations have no significant influence on the accuracy of the solution. The domain integral is evaluated using the dual reciprocity method. The results are compared with a direct integration of the integral, and the accuracy is quite satisfactory. The problem with irregular frequencies is taken care of by the CBIEM (or CHIEF-method) together with a singular value decomposition technique. This method is simple to implement and works very well. The model is verified using Homma`s island as a test case. The test cases are limited to shallow water since the analytical solution is only valid in this region. Several depth ratios are examined, and it is found that the accuracy of the model increases with increasing wave period and decreasing depth ratio. Short waves, e.g. wind generated waves, can allow depth variations up to approximately 2 before the error exceeds 10%, while long waves can allow larger depth ratios. It is concluded that the perturbation idea is highly usable. A study of (partially) absorbing boundary conditions is also conducted. (EG)

  7. How Do Various Maize Crop Models Vary in Their Responses to Climate Change Factors?

    Science.gov (United States)

    Bassu, Simona; Brisson, Nadine; Grassini, Patricio; Durand, Jean-Louis; Boote, Kenneth; Lizaso, Jon; Jones, James W.; Rosenzweig, Cynthia; Ruane, Alex C.; Adam, Myriam; hide

    2014-01-01

    Potential consequences of climate change on crop production can be studied using mechanistic crop simulation models. While a broad variety of maize simulation models exist, it is not known whether different models diverge on grain yield responses to changes in climatic factors, or whether they agree in their general trends related to phenology, growth, and yield. With the goal of analyzing the sensitivity of simulated yields to changes in temperature and atmospheric carbon dioxide concentrations [CO2], we present the largest maize crop model intercomparison to date, including 23 different models. These models were evaluated for four locations representing a wide range of maize production conditions in the world: Lusignan (France), Ames (USA), Rio Verde (Brazil) and Morogoro (Tanzania). While individual models differed considerably in absolute yield simulation at the four sites, an ensemble of a minimum number of models was able to simulate absolute yields accurately at the four sites even with low data for calibration, thus suggesting that using an ensemble of models has merit. Temperature increase had strong negative influence on modeled yield response of roughly -0.5 Mg ha(sup 1) per degC. Doubling [CO2] from 360 to 720 lmol mol 1 increased grain yield by 7.5% on average across models and the sites. That would therefore make temperature the main factor altering maize yields at the end of this century. Furthermore, there was a large uncertainty in the yield response to [CO2] among models. Model responses to temperature and [CO2] did not differ whether models were simulated with low calibration information or, simulated with high level of calibration information.

  8. Specification and testing of Multiplicative Time-Varying GARCH models with applications

    DEFF Research Database (Denmark)

    Amado, Cristina; Teräsvirta, Timo

    2017-01-01

    In this article, we develop a specification technique for building multiplicative time-varying GARCH models of Amado and Teräsvirta (2008, 2013). The variance is decomposed into an unconditional and a conditional component such that the unconditional variance component is allowed to evolve smoothly...... over time. This nonstationary component is defined as a linear combination of logistic transition functions with time as the transition variable. The appropriate number of transition functions is determined by a sequence of specification tests. For that purpose, a coherent modelling strategy based...... on statistical inference is presented. It is heavily dependent on Lagrange multiplier type misspecification tests. The tests are easily implemented as they are entirely based on auxiliary regressions. Finite-sample properties of the strategy and tests are examined by simulation. The modelling strategy...

  9. Time-Varying FOPDT Modeling and On-line Parameter Identification

    DEFF Research Database (Denmark)

    Yang, Zhenyu; Sun, Zhen

    2013-01-01

    A type of Time-Varying First-Order Plus Dead-Time (TV-FOPDT) model is extended from SISO format into a MISO version by explicitly taking the disturbance input into consideration. Correspondingly, a set of on-line parameter identification algorithms oriented to MISO TV-FOPDT model are proposed based...... on the Mixed-Integer-Nonlinear Programming, Least-Mean-Square and sliding window techniques. The proposed approaches can simultaneously estimate the time-dependent system parameters, as well as the unknown disturbance input if it is the case, in an on-line manner. The proposed concepts and algorithms...... are firstly illustrated through a numerical example, and then applied to investigate transient superheat dynamic modeling in a supermarket refrigeration system....

  10. Modeling intensive longitudinal data with mixtures of nonparametric trajectories and time-varying effects.

    Science.gov (United States)

    Dziak, John J; Li, Runze; Tan, Xianming; Shiffman, Saul; Shiyko, Mariya P

    2015-12-01

    Behavioral scientists increasingly collect intensive longitudinal data (ILD), in which phenomena are measured at high frequency and in real time. In many such studies, it is of interest to describe the pattern of change over time in important variables as well as the changing nature of the relationship between variables. Individuals' trajectories on variables of interest may be far from linear, and the predictive relationship between variables of interest and related covariates may also change over time in a nonlinear way. Time-varying effect models (TVEMs; see Tan, Shiyko, Li, Li, & Dierker, 2012) address these needs by allowing regression coefficients to be smooth, nonlinear functions of time rather than constants. However, it is possible that not only observed covariates but also unknown, latent variables may be related to the outcome. That is, regression coefficients may change over time and also vary for different kinds of individuals. Therefore, we describe a finite mixture version of TVEM for situations in which the population is heterogeneous and in which a single trajectory would conceal important, interindividual differences. This extended approach, MixTVEM, combines finite mixture modeling with non- or semiparametric regression modeling, to describe a complex pattern of change over time for distinct latent classes of individuals. The usefulness of the method is demonstrated in an empirical example from a smoking cessation study. We provide a versatile SAS macro and R function for fitting MixTVEMs. (c) 2015 APA, all rights reserved).

  11. Estimation of Bid Curves in Power Exchanges using Time-varying Simultaneous-Equations Models

    Science.gov (United States)

    Ofuji, Kenta; Yamaguchi, Nobuyuki

    Simultaneous-equations model (SEM) is generally used in economics to estimate interdependent endogenous variables such as price and quantity in a competitive, equilibrium market. In this paper, we have attempted to apply SEM to JEPX (Japan Electric Power eXchange) spot market, a single-price auction market, using the publicly available data of selling and buying bid volumes, system price and traded quantity. The aim of this analysis is to understand the magnitude of influences to the auctioned prices and quantity from the selling and buying bids, than to forecast prices and quantity for risk management purposes. In comparison with the Ordinary Least Squares (OLS) estimation where the estimation results represent average values that are independent of time, we employ a time-varying simultaneous-equations model (TV-SEM) to capture structural changes inherent in those influences, using State Space models with Kalman filter stepwise estimation. The results showed that the buying bid volumes has that highest magnitude of influences among the factors considered, exhibiting time-dependent changes, ranging as broad as about 240% of its average. The slope of the supply curve also varies across time, implying the elastic property of the supply commodity, while the demand curve remains comparatively inelastic and stable over time.

  12. Modelling of the diffusion of pollutants in the atmosphere under varying conditions in large cultivated regions

    International Nuclear Information System (INIS)

    Wueneke, C.D.; Schultz, H.

    1975-01-01

    The most important routines of a numerical code based on the particle-in-cell-method for calculating the transport and the turbulent dispersion of inert and radio-active pollutants in the atmosphere have been programmed and have been tested successfully on the CDC computer CYBER 73/76 of the Regional Computer Centre for Niedersachsen in Hanover. Compared to the Gaussian plume model such a numerical code based on the particle-in-cell-method offers several advantages for the computation of the diffusion under varying conditions in large cultivated regions. (orig.) [de

  13. Nonlinear Parameter-Varying AeroServoElastic Reduced Order Model for Aerostructural Sensing and Control, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — The overall goal of the project is to develop reliable reduced order modeling technologies to automatically generate nonlinear, parameter-varying (PV),...

  14. The Three-Dimensional Velocity Distribution of Wide Gap Taylor-Couette Flow Modelled by CFD

    Directory of Open Access Journals (Sweden)

    David Shina Adebayo

    2016-01-01

    Full Text Available A numerical investigation is conducted for the flow between two concentric cylinders with a wide gap, relevant to bearing chamber applications. This wide gap configuration has received comparatively less attention than narrow gap journal bearing type geometries. The flow in the gap between an inner rotating cylinder and an outer stationary cylinder has been modelled as an incompressible flow using an implicit finite volume RANS scheme with the realisable k-ε model. The model flow is above the critical Taylor number at which axisymmetric counterrotating Taylor vortices are formed. The tangential velocity profiles at all axial locations are different from typical journal bearing applications, where the velocity profiles are quasilinear. The predicted results led to two significant findings of impact in rotating machinery operations. Firstly, the axial variation of the tangential velocity gradient induces an axially varying shear stress, resulting in local bands of enhanced work input to the working fluid. This is likely to cause unwanted heat transfer on the surface in high torque turbomachinery applications. Secondly, the radial inflow at the axial end-wall boundaries is likely to promote the transport of debris to the junction between the end-collar and the rotating cylinder, causing the build-up of fouling in the seal.

  15. A time-varying subjective quality model for mobile streaming videos with stalling events

    Science.gov (United States)

    Ghadiyaram, Deepti; Pan, Janice; Bovik, Alan C.

    2015-09-01

    Over-the-top mobile video streaming is invariably influenced by volatile network conditions which cause playback interruptions (stalling events), thereby impairing users' quality of experience (QoE). Developing models that can accurately predict users' QoE could enable the more efficient design of quality-control protocols for video streaming networks that reduce network operational costs while still delivering high-quality video content to the customers. Existing objective models that predict QoE are based on global video features, such as the number of stall events and their lengths, and are trained and validated on a small pool of ad hoc video datasets, most of which are not publicly available. The model we propose in this work goes beyond previous models as it also accounts for the fundamental effect that a viewer's recent level of satisfaction or dissatisfaction has on their overall viewing experience. In other words, the proposed model accounts for and adapts to the recency, or hysteresis effect caused by a stall event in addition to accounting for the lengths, frequency of occurrence, and the positions of stall events - factors that interact in a complex way to affect a user's QoE. On the recently introduced LIVE-Avvasi Mobile Video Database, which consists of 180 distorted videos of varied content that are afflicted solely with over 25 unique realistic stalling events, we trained and validated our model to accurately predict the QoE, attaining standout QoE prediction performance.

  16. A Probabilistic Genome-Wide Gene Reading Frame Sequence Model

    DEFF Research Database (Denmark)

    Have, Christian Theil; Mørk, Søren

    as output. The model can be used to obtain the most probable genome annotation based on a combination of i: a gene finder score of each gene candidate and ii: the sequence of the reading frames of gene candidates through a genome. The model --- as well as a higher order variant --- is developed and tested......We introduce a new type of probabilistic sequence model, that model the sequential composition of reading frames of genes in a genome. Our approach extends gene finders with a model of the sequential composition of genes at the genome-level -- effectively producing a sequential genome annotation...... using the probabilistic logic programming language and machine learning system PRISM - a fast and efficient model prototyping environment, using bacterial gene finding performance as a benchmark of signal strength. The model is used to prune a set of gene predictions from an underlying gene finder...

  17. Time-varying metamaterials based on graphene-wrapped microwires: Modeling and potential applications

    Science.gov (United States)

    Salary, Mohammad Mahdi; Jafar-Zanjani, Samad; Mosallaei, Hossein

    2018-03-01

    The successful realization of metamaterials and metasurfaces requires the judicious choice of constituent elements. In this paper, we demonstrate the implementation of time-varying metamaterials in the terahertz frequency regime by utilizing graphene-wrapped microwires as building blocks and modulation of graphene conductivity through exterior electrical gating. These elements enable enhancement of light-graphene interaction by utilizing optical resonances associated with Mie scattering, yielding a large tunability and modulation depth. We develop a semianalytical framework based on transition-matrix formulation for modeling and analysis of periodic and aperiodic arrays of such time-varying building blocks. The proposed method is validated against full-wave numerical results obtained using the finite-difference time-domain method. It provides an ideal tool for mathematical synthesis and analysis of space-time gradient metamaterials, eliminating the need for computationally expensive numerical models. Moreover, it allows for a wider exploration of exotic space-time scattering phenomena in time-modulated metamaterials. We apply the method to explore the role of modulation parameters in the generation of frequency harmonics and their emerging wavefronts. Several potential applications of such platforms are demonstrated, including frequency conversion, holographic generation of frequency harmonics, and spatiotemporal manipulation of light. The presented results provide key physical insights to design time-modulated functional metadevices using various building blocks and open up new directions in the emerging paradigm of time-modulated metamaterials.

  18. Time-varying BRDFs.

    Science.gov (United States)

    Sun, Bo; Sunkavalli, Kalyan; Ramamoorthi, Ravi; Belhumeur, Peter N; Nayar, Shree K

    2007-01-01

    The properties of virtually all real-world materials change with time, causing their bidirectional reflectance distribution functions (BRDFs) to be time varying. However, none of the existing BRDF models and databases take time variation into consideration; they represent the appearance of a material at a single time instance. In this paper, we address the acquisition, analysis, modeling, and rendering of a wide range of time-varying BRDFs (TVBRDFs). We have developed an acquisition system that is capable of sampling a material's BRDF at multiple time instances, with each time sample acquired within 36 sec. We have used this acquisition system to measure the BRDFs of a wide range of time-varying phenomena, which include the drying of various types of paints (watercolor, spray, and oil), the drying of wet rough surfaces (cement, plaster, and fabrics), the accumulation of dusts (household and joint compound) on surfaces, and the melting of materials (chocolate). Analytic BRDF functions are fit to these measurements and the model parameters' variations with time are analyzed. Each category exhibits interesting and sometimes nonintuitive parameter trends. These parameter trends are then used to develop analytic TVBRDF models. The analytic TVBRDF models enable us to apply effects such as paint drying and dust accumulation to arbitrary surfaces and novel materials.

  19. Proportional hazards model with varying coefficients for length-biased data.

    Science.gov (United States)

    Zhang, Feipeng; Chen, Xuerong; Zhou, Yong

    2014-01-01

    Length-biased data arise in many important applications including epidemiological cohort studies, cancer prevention trials and studies of labor economics. Such data are also often subject to right censoring due to loss of follow-up or the end of study. In this paper, we consider a proportional hazards model with varying coefficients for right-censored and length-biased data, which is used to study the interact effect nonlinearly of covariates with an exposure variable. A local estimating equation method is proposed for the unknown coefficients and the intercept function in the model. The asymptotic properties of the proposed estimators are established by using the martingale theory and kernel smoothing techniques. Our simulation studies demonstrate that the proposed estimators have an excellent finite-sample performance. The Channing House data is analyzed to demonstrate the applications of the proposed method.

  20. A multiscale MDCT image-based breathing lung model with time-varying regional ventilation

    Science.gov (United States)

    Yin, Youbing; Choi, Jiwoong; Hoffman, Eric A.; Tawhai, Merryn H.; Lin, Ching-Long

    2013-07-01

    A novel algorithm is presented that links local structural variables (regional ventilation and deforming central airways) to global function (total lung volume) in the lung over three imaged lung volumes, to derive a breathing lung model for computational fluid dynamics simulation. The algorithm constitutes the core of an integrative, image-based computational framework for subject-specific simulation of the breathing lung. For the first time, the algorithm is applied to three multi-detector row computed tomography (MDCT) volumetric lung images of the same individual. A key technique in linking global and local variables over multiple images is an in-house mass-preserving image registration method. Throughout breathing cycles, cubic interpolation is employed to ensure C1 continuity in constructing time-varying regional ventilation at the whole lung level, flow rate fractions exiting the terminal airways, and airway deformation. The imaged exit airway flow rate fractions are derived from regional ventilation with the aid of a three-dimensional (3D) and one-dimensional (1D) coupled airway tree that connects the airways to the alveolar tissue. An in-house parallel large-eddy simulation (LES) technique is adopted to capture turbulent-transitional-laminar flows in both normal and deep breathing conditions. The results obtained by the proposed algorithm when using three lung volume images are compared with those using only one or two volume images. The three-volume-based lung model produces physiologically-consistent time-varying pressure and ventilation distribution. The one-volume-based lung model under-predicts pressure drop and yields un-physiological lobar ventilation. The two-volume-based model can account for airway deformation and non-uniform regional ventilation to some extent, but does not capture the non-linear features of the lung.

  1. Rescheduling models for network-wide railway traffic management

    NARCIS (Netherlands)

    Kecman, P.; Corman, F.; D'Ariano, A.; Goverde, R.M.P.

    2012-01-01

    In the last decades of railway operations research, microscopic models have been intensively studied to support traffic operators in managing their dispatching areas. However, those models result in long computation times for large and highly utilized networks. The problem of controlling

  2. Detecting memory and structure in human navigation patterns using Markov chain models of varying order.

    Directory of Open Access Journals (Sweden)

    Philipp Singer

    Full Text Available One of the most frequently used models for understanding human navigation on the Web is the Markov chain model, where Web pages are represented as states and hyperlinks as probabilities of navigating from one page to another. Predominantly, human navigation on the Web has been thought to satisfy the memoryless Markov property stating that the next page a user visits only depends on her current page and not on previously visited ones. This idea has found its way in numerous applications such as Google's PageRank algorithm and others. Recently, new studies suggested that human navigation may better be modeled using higher order Markov chain models, i.e., the next page depends on a longer history of past clicks. Yet, this finding is preliminary and does not account for the higher complexity of higher order Markov chain models which is why the memoryless model is still widely used. In this work we thoroughly present a diverse array of advanced inference methods for determining the appropriate Markov chain order. We highlight strengths and weaknesses of each method and apply them for investigating memory and structure of human navigation on the Web. Our experiments reveal that the complexity of higher order models grows faster than their utility, and thus we confirm that the memoryless model represents a quite practical model for human navigation on a page level. However, when we expand our analysis to a topical level, where we abstract away from specific page transitions to transitions between topics, we find that the memoryless assumption is violated and specific regularities can be observed. We report results from experiments with two types of navigational datasets (goal-oriented vs. free form and observe interesting structural differences that make a strong argument for more contextual studies of human navigation in future work.

  3. Toy Models of Universe with an Effective Varying Λ-Term in Lyra Manifold

    Directory of Open Access Journals (Sweden)

    Martiros Khurshudyan

    2015-01-01

    Full Text Available Research on the accelerated expansion of our Universe captures a lot of attention. The dark energy (DE is a way to explain it. In this paper we will consider scalar field quintessence DE with ωDE>-1 EoS, where the dynamics of the DE models related to the dynamics of the scalar field. We are interested in the study of the behavior of the Universe in the presence of interacting quintessence DE models in Lyra manifold with a varying Λt. In a considered framework we also would like to propose a new form for Λt. We found that the models correspond to the transit Universe, which will enter the accelerated expansion phase and will remain there with a constant deceleration parameter q. We found also that the Λt is a decreasing function which takes a small positive value with Ωm≠0 and ΩQ→const dominating Ωm in the old Universe. Observational constraints are applied and causality issue via CS2 is discussed as a possible way to either reject or accept the models.

  4. Using the power balance model to simulate cross-country skiing on varying terrain

    Directory of Open Access Journals (Sweden)

    Moxnes JF

    2014-05-01

    Full Text Available John F Moxnes,1 Øyvind Sandbakk,2 Kjell Hausken31Department for Protection, Norwegian Defence Research Establishment, Kjeller, Norway; 2Center for Elite Sports Research, Department of Neuroscience, Norwegian University of Science and Technology, Trondheim, Norway; 3Faculty of Social Sciences, University of Stavanger, Stavanger, NorwayAbstract: The current study adapts the power balance model to simulate cross-country skiing on varying terrain. We assumed that the skier’s locomotive power at a self-chosen pace is a function of speed, which is impacted by friction, incline, air drag, and mass. An elite male skier’s position along the track during ski skating was simulated and compared with his experimental data. As input values in the model, air drag and friction were estimated from the literature based on the skier's mass, snow conditions, and speed. We regard the fit as good, since the difference in racing time between simulations and measurements was 2 seconds of the 815 seconds racing time, with acceptable fit both in uphill and downhill terrain. Using this model, we estimated the influence of changes in various factors such as air drag, friction, and body mass on performance. In conclusion, the power balance model with locomotive power as a function of speed was found to be a valid tool for analyzing performance in cross-country skiing.Keywords: air drag, efficiency, friction coefficient, speed, locomotive power

  5. Rangeland Livelihood Strategies under Varying Climate Regimes: Model Insights from Southern Kenya

    Directory of Open Access Journals (Sweden)

    Rebecca Kariuki

    2018-04-01

    Full Text Available Rangelands throughout sub-Saharan Africa are currently undergoing two major pressures: climate change (through altered rainfall and seasonality patterns and habitat fragmentation (brought by land use change driven by land demand for agriculture and conservation. Here we explore these dimensions, investigating the impact of land use change decisions, by pastoralists in southern Kenya rangelands, on human well-being and animal densities using an agent-based model. The constructed agent-based model uses input biomass data simulated by the Lund-Potsdam-Jena General Ecosystem Simulator (LPJ-GUESS dynamic vegetation model and parameterized with data from literature. Scenarios of land use change under different rainfall years, land tenure types and levels of wildlife conservation support were simulated. Reflecting reality, our results show livestock grazing as the predominant land use that changes with precipitation and land tenure leading to varying livelihood strategies. For example, agriculture is the most common livelihood in wet years and conservation levels increase with increasing support of wildlife conservation initiatives. Our model demonstrates the complex and multiple interactions between pastoralists, land management and the environment. We highlight the importance of understanding the conditions driving the sustainability of semi-arid rangelands and the communities they support, and the role of external actors, such as wildlife conservation investors, in East Africa.

  6. Genome-wide selection by mixed model ridge regression and extensions based on geostatistical models.

    Science.gov (United States)

    Schulz-Streeck, Torben; Piepho, Hans-Peter

    2010-03-31

    The success of genome-wide selection (GS) approaches will depend crucially on the availability of efficient and easy-to-use computational tools. Therefore, approaches that can be implemented using mixed models hold particular promise and deserve detailed study. A particular class of mixed models suitable for GS is given by geostatistical mixed models, when genetic distance is treated analogously to spatial distance in geostatistics. We consider various spatial mixed models for use in GS. The analyses presented for the QTL-MAS 2009 dataset pay particular attention to the modelling of residual errors as well as of polygenetic effects. It is shown that geostatistical models are viable alternatives to ridge regression, one of the common approaches to GS. Correlations between genome-wide estimated breeding values and true breeding values were between 0.879 and 0.889. In the example considered, we did not find a large effect of the residual error variance modelling, largely because error variances were very small. A variance components model reflecting the pedigree of the crosses did not provide an improved fit. We conclude that geostatistical models deserve further study as a tool to GS that is easily implemented in a mixed model package.

  7. A probabilistic dynamic energy model for ad-hoc wireless sensors network with varying topology

    Science.gov (United States)

    Al-Husseini, Amal

    In this dissertation we investigate the behavior of Wireless Sensor Networks (WSNs) from the degree distribution and evolution perspective. In specific, we focus on implementation of a scale-free degree distribution topology for energy efficient WSNs. WSNs is an emerging technology that finds its applications in different areas such as environment monitoring, agricultural crop monitoring, forest fire monitoring, and hazardous chemical monitoring in war zones. This technology allows us to collect data without human presence or intervention. Energy conservation/efficiency is one of the major issues in prolonging the active life WSNs. Recently, many energy aware and fault tolerant topology control algorithms have been presented, but there is dearth of research focused on energy conservation/efficiency of WSNs. Therefore, we study energy efficiency and fault-tolerance in WSNs from the degree distribution and evolution perspective. Self-organization observed in natural and biological systems has been directly linked to their degree distribution. It is widely known that scale-free distribution bestows robustness, fault-tolerance, and access efficiency to system. Fascinated by these properties, we propose two complex network theoretic self-organizing models for adaptive WSNs. In particular, we focus on adopting the Barabasi and Albert scale-free model to fit into the constraints and limitations of WSNs. We developed simulation models to conduct numerical experiments and network analysis. The main objective of studying these models is to find ways to reducing energy usage of each node and balancing the overall network energy disrupted by faulty communication among nodes. The first model constructs the wireless sensor network relative to the degree (connectivity) and remaining energy of every individual node. We observed that it results in a scale-free network structure which has good fault tolerance properties in face of random node failures. The second model considers

  8. Description of signature scales in a floating wind turbine model wake subjected to varying turbulence intensity

    Science.gov (United States)

    Kadum, Hawwa; Rockel, Stanislav; Holling, Michael; Peinke, Joachim; Cal, Raul Bayon

    2017-11-01

    The wake behind a floating model horizontal axis wind turbine during pitch motion is investigated and compared to a fixed wind turbine wake. An experiment is conducted in an acoustic wind tunnel where hot-wire data are acquired at five downstream locations. At each downstream location, a rake of 16 hot-wires was used with placement of the probes increasing radially in the vertical, horizontal, and diagonally at 45 deg. In addition, the effect of turbulence intensity on the floating wake is examined by subjecting the wind turbine to different inflow conditions controlled through three settings in the wind tunnel grid, a passive and two active protocols, thus varying in intensity. The wakes are inspected by statistics of the point measurements, where the various length/time scales are considered. The wake characteristics for a floating wind turbine are compared to a fixed turbine, and uncovering its features; relevant as the demand for exploiting deep waters in wind energy is increasing.

  9. A Fragment-Cloud Approach for Modeling Atmospheric Breakup of Asteroids with Varied Internal Structures

    Science.gov (United States)

    Wheeler, Lorien; Mathias, Donovan; NASA Engineering Risk Assessment Team, NASA Asteroid Threat Assessment Project

    2016-10-01

    As an asteroid descends toward Earth, it deposits energy in the atmosphere through aerodynamic drag and ablation. Asteroid impact risk assessments rely on energy deposition estimates to predict blast overpressures and ground damage that may result from an airburst, such as the one that occurred over Chelyabinsk, Russia in 2013. The rates and altitudes at which energy is deposited along the entry trajectory depend upon how the bolide fragments, which in turn depends upon its internal structure and composition. In this work, an analytic asteroid fragmentation model has been developed to model the atmospheric breakup and resulting energy deposition of asteroids with a range of internal structures. The modeling approach combines successive fragmentation of larger independent pieces with aggregate debris clouds released with each fragmentation event. The model can vary the number and masses of fragments produced, the amount of mass released as debris clouds, and the size-strength scaling used to increase the robustness of smaller fragments. The initial asteroid body can be seeded with a distribution of independent fragment sizes amid a remaining debris mass to represent loose rubble pile conglomerations, or can be defined as a monolith with an outer regolith layer. This approach enables the model to represent a range of breakup behaviors and reproduce detailed energy deposition features such as multiple flares due to successive burst events, high-altitude regolith blow-off, or initial disruption of rubble piles followed by more energetic breakup of the constituent boulders. These capabilities provide a means to investigate sensitivities of ground damage to potential variations in asteroid structure.

  10. A life cycle cost economics model for projects with uniformly varying operating costs. [management planning

    Science.gov (United States)

    Remer, D. S.

    1977-01-01

    A mathematical model is developed for calculating the life cycle costs for a project where the operating costs increase or decrease in a linear manner with time. The life cycle cost is shown to be a function of the investment costs, initial operating costs, operating cost gradient, project life time, interest rate for capital and salvage value. The results show that the life cycle cost for a project can be grossly underestimated (or overestimated) if the operating costs increase (or decrease) uniformly over time rather than being constant as is often assumed in project economic evaluations. The following range of variables is examined: (1) project life from 2 to 30 years; (2) interest rate from 0 to 15 percent per year; and (3) operating cost gradient from 5 to 90 percent of the initial operating costs. A numerical example plus tables and graphs is given to help calculate project life cycle costs over a wide range of variables.

  11. A hill-type muscle model expansion accounting for effects of varying transverse muscle load.

    Science.gov (United States)

    Siebert, Tobias; Stutzig, Norman; Rode, Christian

    2018-01-03

    Recent studies demonstrated that uniaxial transverse loading (F G ) of a rat gastrocnemius medialis muscle resulted in a considerable reduction of maximum isometric muscle force (ΔF im ). A hill-type muscle model assuming an identical gearing G between both ΔF im and F G as well as lifting height of the load (Δh) and longitudinal muscle shortening (Δl CC ) reproduced experimental data for a single load. Here we tested if this model is able to reproduce experimental changes in ΔF im and Δh for increasing transverse loads (0.64 N, 1.13 N, 1.62 N, 2.11 N, 2.60 N). Three different gearing ratios were tested: (I) constant G c representing the idea of a muscle specific gearing parameter (e.g. predefined by the muscle geometry), (II) G exp determined in experiments with varying transverse load, and (III) G f that reproduced experimental ΔF im for each transverse load. Simulations using G c overestimated ΔF im (up to 59%) and Δh (up to 136%) for increasing load. Although the model assumption (equal G for forces and length changes) held for the three lower loads using G exp and G f , simulations resulted in underestimation of ΔF im by 38% and overestimation of Δh by 58% for the largest load, respectively. To simultaneously reproduce experimental ΔF im and Δh for the two larger loads, it was necessary to reduce F im by 1.9% and 4.6%, respectively. The model seems applicable to account for effects of muscle deformation within a range of transverse loading when using a linear load-dependent function for G. Copyright © 2017 Elsevier Ltd. All rights reserved.

  12. A Fragment-Cloud Model for Breakup of Asteroids with Varied Internal Structures

    Science.gov (United States)

    Wheeler, Lorien; Mathias, Donovan; Stokan, Ed; Brown, Peter

    2016-01-01

    As an asteroid descends toward Earth, it deposits energy in the atmosphere through aerodynamic drag and ablation. Asteroid impact risk assessments rely on energy deposition estimates to predict blast overpressures and ground damage that may result from an airburst, such as the one that occurred over Chelyabinsk, Russia in 2013. The rates and altitudes at which energy is deposited along the entry trajectory depend upon how the bolide fragments, which in turn depends upon its internal structure and composition. In this work, we have developed an analytic asteroid fragmentation model to assess the atmospheric energy deposition of asteroids with a range of structures and compositions. The modeling approach combines successive fragmentation of larger independent pieces with aggregate debris clouds released with each fragmentation event. The model can vary the number and masses of fragments produced, the amount of mass released as debris clouds, the size-strength scaling used to increase the robustness of smaller fragments, and other parameters. The initial asteroid body can be seeded with a distribution of independent fragment sizes amid a remaining debris mass to represent loose rubble pile conglomerations, can be given an outer regolith later, or can be defined as a coherent or fractured monolith. This approach enables the model to represent a range of breakup behaviors and reproduce detailed energy deposition features such as multiple flares due to successive burst events, high-altitude regolith blow-off, or initial disruption of rubble piles followed by more energetic breakup of the constituent boulders. These capabilities provide a means to investigate sensitivities of ground damage to potential variations in asteroid structure.

  13. Blinking model and synchronization in small-world networks with a time-varying coupling

    Science.gov (United States)

    Belykh, Igor V.; Belykh, Vladimir N.; Hasler, Martin

    2004-08-01

    The paper proposes a new type of small-world networks of cells with chaotic behavior. This network consists of a regular lattice of cells with constant 2 K-nearest neighbor couplings and time-dependent on-off couplings between any other pair of cells. In each time interval of duration τ such a coupling is switched on with probability p and the corresponding switching random variables are independent for different links and for different times. At each moment, the coupling structure corresponds to a small-world graph, but the shortcuts change from time interval to time interval, which is a good model for many real-world dynamical networks. It is to be distinguished from networks that have randomly chosen shortcuts, fixed in time. Here, we apply the Connection Graph Stability method, developed in the companion paper (“Connection graph stability method for synchronized coupled chaotic systems”, see this issue), to the study of global synchronization in this network with the time-varying coupling structure, in the case where the on-off switching is fast with respect to the characteristic synchronization time of the network. The synchronization thresholds are explicitly linked with the average path length of the coupling graph and with the probability p of shortcut switchings in this blinking model. We prove that for the blinking model, a few random shortcut additions significantly lower the synchronization threshold together with the effective characteristic path length. Short interactions between cells, as in the blinking model, are important in practice. To cite prominent examples, computers networked over the Internet interact by sending packets of information, and neurons in our brain interact by sending short pulses, called spikes. The rare interaction between arbitrary nodes in the network greatly facilitates synchronization without loading the network much. In this respect, we believe that it is more efficient than a structure of fixed random connections.

  14. A Loudness Model for Time-Varying Sounds Incorporating Binaural Inhibition

    Directory of Open Access Journals (Sweden)

    Brian C. J. Moore

    2016-12-01

    Full Text Available This article describes a model of loudness for time-varying sounds that incorporates the concept of binaural inhibition, namely, that the signal applied to one ear can reduce the internal response to a signal at the other ear. For each ear, the model includes the following: a filter to allow for the effects of transfer of sound through the outer and middle ear; a short-term spectral analysis with greater frequency resolution at low than at high frequencies; calculation of an excitation pattern, representing the magnitudes of the outputs of the auditory filters as a function of center frequency; application of a compressive nonlinearity to the output of each auditory filter; and smoothing over time of the resulting instantaneous specific loudness pattern using an averaging process resembling an automatic gain control. The resulting short-term specific loudness patterns are used to calculate broadly tuned binaural inhibition functions, the amount of inhibition depending on the relative short-term specific loudness at the two ears. The inhibited specific loudness patterns are summed across frequency to give an estimate of the short-term loudness for each ear. The overall short-term loudness is calculated as the sum of the short-term loudness values for the two ears. The long-term loudness for each ear is calculated by smoothing the short-term loudness for that ear, again by a process resembling automatic gain control, and the overall loudness impression is obtained by summing the long-term loudness across ears. The predictions of the model are more accurate than those of an earlier model that did not incorporate binaural inhibition.

  15. In the interests of time: improving HIV allocative efficiency modelling via optimal time-varying allocations.

    Science.gov (United States)

    Shattock, Andrew J; Kerr, Cliff C; Stuart, Robyn M; Masaki, Emiko; Fraser, Nicole; Benedikt, Clemens; Gorgens, Marelize; Wilson, David P; Gray, Richard T

    2016-01-01

    International investment in the response to HIV and AIDS has plateaued and its future level is uncertain. With many countries committed to ending the epidemic, it is essential to allocate available resources efficiently over different response periods to maximize impact. The objective of this study is to propose a technique to determine the optimal allocation of funds over time across a set of HIV programmes to achieve desirable health outcomes. We developed a technique to determine the optimal time-varying allocation of funds (1) when the future annual HIV budget is pre-defined and (2) when the total budget over a period is pre-defined, but the year-on-year budget is to be optimally determined. We use this methodology with Optima, an HIV transmission model that uses non-linear relationships between programme spending and associated programmatic outcomes to quantify the expected epidemiological impact of spending. We apply these methods to data collected from Zambia to determine the optimal distribution of resources to fund the right programmes, for the right people, at the right time. Considering realistic implementation and ethical constraints, we estimate that the optimal time-varying redistribution of the 2014 Zambian HIV budget between 2015 and 2025 will lead to a 7.6% (7.3% to 7.8%) decrease in cumulative new HIV infections compared with a baseline scenario where programme allocations remain at 2014 levels. This compares to a 5.1% (4.6% to 5.6%) reduction in new infections using an optimal allocation with constant programme spending that recommends unrealistic programmatic changes. Contrasting priorities for programme funding arise when assessing outcomes for a five-year funding period over 5-, 10- and 20-year time horizons. Countries increasingly face the need to do more with the resources available. The methodology presented here can aid decision-makers in planning as to when to expand or contract programmes and to which coverage levels to maximize impact.

  16. Cosmological effects of scalar-photon couplings: dark energy and varyingModels

    Energy Technology Data Exchange (ETDEWEB)

    Avgoustidis, A. [School of Physics and Astronomy, University of Nottingham, University Park, Nottingham NG7 2RD (United Kingdom); Martins, C.J.A.P.; Monteiro, A.M.R.V.L.; Vielzeuf, P.E. [Centro de Astrofísica, Universidade do Porto, Rua das Estrelas, 4150-762 Porto (Portugal); Luzzi, G., E-mail: tavgoust@gmail.com, E-mail: Carlos.Martins@astro.up.pt, E-mail: mmonteiro@fc.up.pt, E-mail: up110370652@alunos.fc.up.pt, E-mail: gluzzi@lal.in2p3.fr [Laboratoire de l' Accélérateur Linéaire, Université de Paris-Sud, CNRS/IN2P3, Bâtiment 200, BP 34, 91898 Orsay Cedex (France)

    2014-06-01

    We study cosmological models involving scalar fields coupled to radiation and discuss their effect on the redshift evolution of the cosmic microwave background temperature, focusing on links with varying fundamental constants and dynamical dark energy. We quantify how allowing for the coupling of scalar fields to photons, and its important effect on luminosity distances, weakens current and future constraints on cosmological parameters. In particular, for evolving dark energy models, joint constraints on the dark energy equation of state combining BAO radial distance and SN luminosity distance determinations, will be strongly dominated by BAO. Thus, to fully exploit future SN data one must also independently constrain photon number non-conservation arising from the possible coupling of SN photons to the dark energy scalar field. We discuss how observational determinations of the background temperature at different redshifts can, in combination with distance measures data, set tight constraints on interactions between scalar fields and photons, thus breaking this degeneracy. We also discuss prospects for future improvements, particularly in the context of Euclid and the E-ELT and show that Euclid can, even on its own, provide useful dark energy constraints while allowing for photon number non-conservation.

  17. The varying cosmological constant: a new approximation to the Friedmann equations and universe model

    Science.gov (United States)

    Öztaş, Ahmet M.; Dil, Emre; Smith, Michael L.

    2018-05-01

    We investigate the time-dependent nature of the cosmological constant, Λ, of the Einstein Field Equation (EFE). Beginning with the Einstein-Hilbert action as our fundamental principle we develop a modified version of the EFE allowing the value of Λ to vary as a function of time, Λ(t), indirectly, for an expanding universe. We follow the evolving Λ presuming four-dimensional space-time and a flat universe geometry and present derivations of Λ(t) as functions of the Hubble constant, matter density, and volume changes which can be traced back to the radiation epoch. The models are more detailed descriptions of the Λ dependence on cosmological factors than previous, allowing calculations of the important parameters, Ωm and Ωr, to deep lookback times. Since we derive these without the need for extra dimensions or other special conditions our derivations are useful for model evaluation with astronomical data. This should aid resolution of several difficult problems of astronomy such as the best value for the Hubble constant at present and at recombination.

  18. Identification of a Time-Varying, Box-Jenkins Model of Intrinsic Joint Compliance.

    Science.gov (United States)

    Guarin, Diego L; Kearney, Robert E

    2017-08-01

    The mechanical properties of a joint are determined by the combination of intrinsic and reflex mechanisms. However, in some situations the reflex contributions are small so that intrinsic mechanisms play the dominant role in the control of posture and movement. The intrinsic mechanisms, characterized by the joint compliance, can be described well by a second order, linear model for small perturbations around an operating point defined by mean position and torque. However, the compliance parameters depend strongly on the operating point. Thus, for functional activities, such as walking, where position and torque undergo large, rapid changes, the joint compliance will also present large, fast changes and so will appear to be Time-Varying (TV). Therefore, a TV system identification algorithm must be used to characterize these changes. This paper introduces a novel TV system identification algorithm that achieves this. The method extends an instrumental-variable based algorithm for the identification of linear, TV, parametric, Box-Jenkins models to use periodic data. Simulation studies demonstrate that the new algorithm accurately tracks the changes in intrinsic joint compliance expected during walking. Moreover, the method performs well with the complex noise encountered in practice. Consequently the new method should be a valuable tool for the study of joint mechanics during functional activities.

  19. A mixed-effects, spatially varying coefficients model with application to multi-resolution functional magnetic resonance imaging data.

    Science.gov (United States)

    Liu, Zhuqing; Bartsch, Andreas J; Berrocal, Veronica J; Johnson, Timothy D

    2018-01-01

    Spatial resolution plays an important role in functional magnetic resonance imaging studies as the signal-to-noise ratio increases linearly with voxel volume. In scientific studies, where functional magnetic resonance imaging is widely used, the standard spatial resolution typically used is relatively low which ensures a relatively high signal-to-noise ratio. However, for pre-surgical functional magnetic resonance imaging analysis, where spatial accuracy is paramount, high-resolution functional magnetic resonance imaging may play an important role with its greater spatial resolution. High spatial resolution comes at the cost of a smaller signal-to-noise ratio. This begs the question as to whether we can leverage the higher signal-to-noise ratio of a standard functional magnetic resonance imaging study with the greater spatial accuracy of a high-resolution functional magnetic resonance imaging study in a pre-operative patient. To answer this question, we propose to regress the statistic image from a high resolution scan onto the statistic image obtained from a standard resolution scan using a mixed-effects model with spatially varying coefficients. We evaluate our model via simulation studies and we compare its performance with a recently proposed model that operates at a single spatial resolution. We apply and compare the two models on data from a patient awaiting tumor resection. Both simulation study results and the real data analysis demonstrate that our newly proposed model indeed leverages the larger signal-to-noise ratio of the standard spatial resolution scan while maintaining the advantages of the high spatial resolution scan.

  20. Incorporating cyclical effects and time-varying covariates in models for single-source capture-recapture data

    NARCIS (Netherlands)

    Husken, T.F.; Cruyff, M.J.L.F.; van der Heijden, P.G.M.

    2017-01-01

    The objective of capture-recapture analysis is to estimate the size of an elusive population, for which the zero-truncated Poisson model is a basic model. We extend this model to the more general recurrent events model to include cyclical eects and time-varying covariates. An application to police

  1. A dynamic growth model of vegetative soya bean plants: model structure and behaviour under varying root temperature and nitrogen concentration

    Science.gov (United States)

    Lim, J. T.; Wilkerson, G. G.; Raper, C. D. Jr; Gold, H. J.

    1990-01-01

    A differential equation model of vegetative growth of the soya bean plant (Glycine max (L.) Merrill cv. Ransom') was developed to account for plant growth in a phytotron system under variation of root temperature and nitrogen concentration in nutrient solution. The model was tested by comparing model outputs with data from four different experiments. Model predictions agreed fairly well with measured plant performance over a wide range of root temperatures and over a range of nitrogen concentrations in nutrient solution between 0.5 and 10.0 mmol NO3- in the phytotron environment. Sensitivity analyses revealed that the model was most sensitive to changes in parameters relating to carbohydrate concentration in the plant and nitrogen uptake rate.

  2. Modeling nonlinear time-dependent treatment effects: an application of the generalized time-varying effect model (TVEM).

    Science.gov (United States)

    Shiyko, Mariya P; Burkhalter, Jack; Li, Runze; Park, Bernard J

    2014-10-01

    The goal of this article is to introduce to social and behavioral scientists the generalized time-varying effect model (TVEM), a semiparametric approach for investigating time-varying effects of a treatment. The method is best suited for data collected intensively over time (e.g., experience sampling or ecological momentary assessments) and addresses questions pertaining to effects of treatment changing dynamically with time. Thus, of interest is the description of timing, magnitude, and (nonlinear) patterns of the effect. Our presentation focuses on practical aspects of the model. A step-by-step demonstration is presented in the context of an empirical study designed to evaluate effects of surgical treatment on quality of life among early stage lung cancer patients during posthospitalization recovery (N = 59; 61% female, M age = 66.1 years). Frequency and level of distress associated with physical symptoms were assessed twice daily over a 2-week period, providing a total of 1,544 momentary assessments. Traditional analyses (analysis of covariance [ANCOVA], repeated-measures ANCOVA, and multilevel modeling) yielded findings of no group differences. In contrast, generalized TVEM identified a pattern of the effect that varied in time and magnitude. Group differences manifested after Day 4. Generalized TVEM is a flexible statistical approach that offers insight into the complexity of treatment effects and allows modeling of nonnormal outcomes. The practical demonstration, shared syntax, and availability of a free set of macros aim to encourage researchers to apply TVEM to complex data and stimulate important scientific discoveries. PsycINFO Database Record (c) 2014 APA, all rights reserved.

  3. Modeling Brain Circuitry over a Wide Range of Scales

    Directory of Open Access Journals (Sweden)

    Pascal eFua

    2015-04-01

    Full Text Available If we are ever to unravel the mysteries of brain function at its most fundamental level, we will need a precise understanding of how its component neurons connect to each other. Electron Microscopes (EM can now provide the nanometer resolution that is needed to image synapses, and therefore connections, while Light Microscopes (LM see at the micrometer resolution required to model the 3D structure of the dendritic network. Since both the topology and the connection strength are integral parts of the brain's wiring diagram, being able to combine these two modalities is critically important.In fact, these microscopes now routinely produce high-resolution imagery in such large quantities that the bottleneck becomes automated processing and interpretation, which is needed for such data to be exploited to its full potential. In this paper, we briefly review the Computer Vision techniques we have developed at EPFL to address this need. They include delineating dendritic arbors from LM imagery, segmenting organelles from EM, and combining the two into a consistent representation.

  4. Modeling Radar Scattering by Planetary Regoliths for Varying Angles of Incidence

    Science.gov (United States)

    Prem, P.; Patterson, G. W.; Zimmerman, M. I.

    2017-12-01

    readily accommodate varying incidence angles, as well as heterogeneities in regolith composition and properties - factors that may be of interest in both lunar and other contexts. We will report on the development and validation of the coupled MSTM-Monte Carlo model, and discuss its application to problems of interest.

  5. Phase transition of the susceptible-infected-susceptible dynamics on time-varying configuration model networks

    Science.gov (United States)

    St-Onge, Guillaume; Young, Jean-Gabriel; Laurence, Edward; Murphy, Charles; Dubé, Louis J.

    2018-02-01

    We present a degree-based theoretical framework to study the susceptible-infected-susceptible (SIS) dynamics on time-varying (rewired) configuration model networks. Using this framework on a given degree distribution, we provide a detailed analysis of the stationary state using the rewiring rate to explore the whole range of the time variation of the structure relative to that of the SIS process. This analysis is suitable for the characterization of the phase transition and leads to three main contributions: (1) We obtain a self-consistent expression for the absorbing-state threshold, able to capture both collective and hub activation. (2) We recover the predictions of a number of existing approaches as limiting cases of our analysis, providing thereby a unifying point of view for the SIS dynamics on random networks. (3) We obtain bounds for the critical exponents of a number of quantities in the stationary state. This allows us to reinterpret the concept of hub-dominated phase transition. Within our framework, it appears as a heterogeneous critical phenomenon: observables for different degree classes have a different scaling with the infection rate. This phenomenon is followed by the successive activation of the degree classes beyond the epidemic threshold.

  6. Generalized partial linear varying multi-index coefficient model for gene-environment interactions.

    Science.gov (United States)

    Liu, Xu; Gao, Bin; Cui, Yuehua

    2017-03-01

    Epidemiological studies have suggested the joint effect of simultaneous exposures to multiple environments on disease risk. However, how environmental mixtures as a whole jointly modify genetic effect on disease risk is still largely unknown. Given the importance of gene-environment (G×E) interactions on many complex diseases, rigorously assessing the interaction effect between genes and environmental mixtures as a whole could shed novel insights into the etiology of complex diseases. For this purpose, we propose a generalized partial linear varying multi-index coefficient model (GPLVMICM) to capture the genetic effect on disease risk modulated by multiple environments as a whole. GPLVMICM is semiparametric in nature which allows different index loading parameters in different index functions. We estimate the parametric parameters by a profile procedure, and the nonparametric index functions by a B-spline backfitted kernel method. Under some regularity conditions, the proposed parametric and nonparametric estimators are shown to be consistent and asymptotically normal. We propose a generalized likelihood ratio (GLR) test to rigorously assess the linearity of the interaction effect between multiple environments and a gene, while apply a parametric likelihood test to detect linear G×E interaction effect. The finite sample performance of the proposed method is examined through simulation studies and is further illustrated through a real data analysis.

  7. Improvement of and Parameter Identification for the Bimodal Time-Varying Modified Kanai-Tajimi Power Spectral Model

    Directory of Open Access Journals (Sweden)

    Huiguo Chen

    2017-01-01

    Full Text Available Based on the Kanai-Tajimi power spectrum filtering method proposed by Du Xiuli et al., a genetic algorithm and a quadratic optimization identification technique are employed to improve the bimodal time-varying modified Kanai-Tajimi power spectral model and the parameter identification method proposed by Vlachos et al. Additionally, a method for modeling time-varying power spectrum parameters for ground motion is proposed. The 8244 Orion and Chi-Chi earthquake accelerograms are selected as examples for time-varying power spectral model parameter identification and ground motion simulations to verify the feasibility and effectiveness of the improved bimodal time-varying modified Kanai-Tajimi power spectral model. The results of this study provide important references for designing ground motion inputs for seismic analyses of major engineering structures.

  8. Nonlinear Parameter-Varying AeroServoElastic Reduced Order Model for Aerostructural Sensing and Control, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — The overall goal of the project is to develop reliable reduced order modeling technologies to automatically generate parameter-varying (PV), aeroservoelastic (ASE)...

  9. Optimization of a simplified automobile finite element model using time varying injury metrics.

    Science.gov (United States)

    Gaewsky, James P; Danelson, Kerry A; Weaver, Caitlin M; Stitzel, Joel D

    2014-01-01

    In 2011, frontal crashes resulted in 55% of passenger car injuries with 10,277 fatalities and 866,000 injuries in the United States. To better understand frontal crash injury mechanisms, human body finite element models (FEMs) can be used to reconstruct Crash Injury Research and Engineering Network (CIREN) cases. A limitation of this method is the paucity of vehicle FEMs; therefore, we developed a functionally equivalent simplified vehicle model. The New Car Assessment Program (NCAP) data for our selected vehicle was from a frontal collision with Hybrid III (H3) Anthropomorphic Test Device (ATD) occupant. From NCAP test reports, the vehicle geometry was created and the H3 ATD was positioned. The material and component properties optimized using a variation study process were: steering column shear bolt fracture force and stroke resistance, seatbelt pretensioner force, frontal and knee bolster airbag stiffness, and belt friction through the D-ring. These parameters were varied using three successive Latin Hypercube Designs of Experiments with 130-200 simulations each. The H3 injury response was compared to the reported NCAP frontal test results for the head, chest and pelvis accelerations, and seat belt and femur forces. The phase, magnitude, and comprehensive error factors, from a Sprague and Geers analysis were calculated for each injury metric and then combined to determine the simulations with the best match to the crash test. The Sprague and Geers analyses typically yield error factors ranging from 0 to 1 with lower scores being more optimized. The total body injury response error factor for the most optimized simulation from each round of the variation study decreased from 0.466 to 0.395 to 0.360. This procedure to optimize vehicle FEMs is a valuable tool to conduct future CIREN case reconstructions in a variety of vehicles.

  10. Ripples and Dunes in Directionally Varying Flows--Three Decades of Experiments, Theory, and Modeling (Invited)

    Science.gov (United States)

    Rubin, D. M.

    2013-12-01

    The morphology and dynamics of ripples and dunes have received considerable study for the past half-century, but most studies have focused on only the small subset of flows that are convenient to study in a lab: using flumes with flows that are constant in direction or wave tanks with flows that reverse by 180°. Many natural flows are free to change in direction by other angles (seasonal or daily cycles in wind direction; reversing wave-generated flows combined with alongshore currents; reversing tidal currents in curved channels; unsteady separated flows). A handful of studies have addressed a broader set of such flows using specialized lab setups (rotating beds in unidirectional flows; oscillating or pulsed beds in static or flowing water; unsteady flows that arise in channel expansions or topographic depressions). Other studies have applied theory or modeling (usually incorporating simplified relations between topography, flow, and sediment transport) to bedform morphology and orientation. The studies that have addressed this broader variety of natural flows have found that compared to the relatively sinuous barchanoid morphology of ripples and dunes in unidirectional flows, bedforms in bi-directional flows can have relatively long straight crests (wave ripples or linear dunes); and multi-directional flows have been shown to produce brick- or tile-pattern ripples under interfering waves, star dunes in deserts, and polygonal dunes within craters on Mars. The topic receiving most study in directionally varying flows is bedform orientation in bi-directional flows. A number of lab, field, theoretical, and modeling studies have found that bedforms arise with the orientation subject to maximum gross-normal transport, but some recent results suggest other orientations are possible where a bed is only partially covered in sand.

  11. Real time damage detection using recursive principal components and time varying auto-regressive modeling

    Science.gov (United States)

    Krishnan, M.; Bhowmik, B.; Hazra, B.; Pakrashi, V.

    2018-02-01

    In this paper, a novel baseline free approach for continuous online damage detection of multi degree of freedom vibrating structures using Recursive Principal Component Analysis (RPCA) in conjunction with Time Varying Auto-Regressive Modeling (TVAR) is proposed. In this method, the acceleration data is used to obtain recursive proper orthogonal components online using rank-one perturbation method, followed by TVAR modeling of the first transformed response, to detect the change in the dynamic behavior of the vibrating system from its pristine state to contiguous linear/non-linear-states that indicate damage. Most of the works available in the literature deal with algorithms that require windowing of the gathered data owing to their data-driven nature which renders them ineffective for online implementation. Algorithms focussed on mathematically consistent recursive techniques in a rigorous theoretical framework of structural damage detection is missing, which motivates the development of the present framework that is amenable for online implementation which could be utilized along with suite experimental and numerical investigations. The RPCA algorithm iterates the eigenvector and eigenvalue estimates for sample covariance matrices and new data point at each successive time instants, using the rank-one perturbation method. TVAR modeling on the principal component explaining maximum variance is utilized and the damage is identified by tracking the TVAR coefficients. This eliminates the need for offline post processing and facilitates online damage detection especially when applied to streaming data without requiring any baseline data. Numerical simulations performed on a 5-dof nonlinear system under white noise excitation and El Centro (also known as 1940 Imperial Valley earthquake) excitation, for different damage scenarios, demonstrate the robustness of the proposed algorithm. The method is further validated on results obtained from case studies involving

  12. Application of a Statistical Linear Time-Varying System Model of High Grazing Angle Sea Clutter for Computing Interference Power

    Science.gov (United States)

    2017-12-08

    Application of a Statistical Linear Time -Varying System Model of High Grazing Angle Sea Clutter for Computing Interference Power i REPORT DOCUMENTATION...for this collection of information is estimated to average 1 hour per response, including the time for reviewing instructions, searching existing data...code) b. ABSTRACT c. THIS PAGE 18. NUMBER OF PAGES 17. LIMITATION OF ABSTRACT Application of a Statistical Linear Time -Varying System Model of High

  13. Genetic contributors to variation in alcohol consumption vary by race/ethnicity in a large multi-ethnic genome-wide association study.

    Science.gov (United States)

    Jorgenson, E; Thai, K K; Hoffmann, T J; Sakoda, L C; Kvale, M N; Banda, Y; Schaefer, C; Risch, N; Mertens, J; Weisner, C; Choquet, H

    2017-09-01

    Alcohol consumption is a complex trait determined by both genetic and environmental factors, and is correlated with the risk of alcohol use disorders. Although a small number of genetic loci have been reported to be associated with variation in alcohol consumption, genetic factors are estimated to explain about half of the variance in alcohol consumption, suggesting that additional loci remain to be discovered. We conducted a genome-wide association study (GWAS) of alcohol consumption in the large Genetic Epidemiology Research in Adult Health and Aging (GERA) cohort, in four race/ethnicity groups: non-Hispanic whites, Hispanic/Latinos, East Asians and African Americans. We examined two statistically independent phenotypes reflecting subjects' alcohol consumption during the past year, based on self-reported information: any alcohol intake (drinker/non-drinker status) and the regular quantity of drinks consumed per week (drinks/week) among drinkers. We assessed these two alcohol consumption phenotypes in each race/ethnicity group, and in a combined trans-ethnic meta-analysis comprising a total of 86 627 individuals. We observed the strongest association between the previously reported single nucleotide polymorphism (SNP) rs671 in ALDH2 and alcohol drinker status (odd ratio (OR)=0.40, P=2.28 × 10 -72 ) in East Asians, and also an effect on drinks/week (beta=-0.17, P=5.42 × 10 -4 ) in the same group. We also observed a genome-wide significant association in non-Hispanic whites between the previously reported SNP rs1229984 in ADH1B and both alcohol consumption phenotypes (OR=0.79, P=2.47 × 10 -20 for drinker status and beta=-0.19, P=1.91 × 10 -35 for drinks/week), which replicated in Hispanic/Latinos (OR=0.72, P=4.35 × 10 -7 and beta=-0.21, P=2.58 × 10 -6 , respectively). Although prior studies reported effects of ADH1B and ALDH2 on lifetime measures, such as risk of alcohol dependence, our study adds further evidence of the effect of the same genes on a cross

  14. The utility of protein structure as a predictor of site-wise dN/dS varies widely among HIV-1 proteins.

    Science.gov (United States)

    Meyer, Austin G; Wilke, Claus O

    2015-10-06

    Protein structure acts as a general constraint on the evolution of viral proteins. One widely recognized structural constraint explaining evolutionary variation among sites is the relative solvent accessibility (RSA) of residues in the folded protein. In influenza virus, the distance from functional sites has been found to explain an additional portion of the evolutionary variation in the external antigenic proteins. However, to what extent RSA and distance from a reference site in the protein can be used more generally to explain protein adaptation in other viruses and in the different proteins of any given virus remains an open question. To address this question, we have carried out an analysis of the distribution and structural predictors of site-wise dN/dS in HIV-1. Our results indicate that the distribution of dN/dS in HIV follows a smooth gamma distribution, with no special enrichment or depletion of sites with dN/dS at or above one. The variation in dN/dS can be partially explained by RSA and distance from a reference site in the protein, but these structural constraints do not act uniformly among the different HIV-1 proteins. Structural constraints are highly predictive in just one of the three enzymes and one of three structural proteins in HIV-1. For these two proteins, the protease enzyme and the gp120 structural protein, structure explains between 30 and 40% of the variation in dN/dS. Finally, for the gp120 protein of the receptor-binding complex, we also find that glycosylation sites explain just 2% of the variation in dN/dS and do not explain gp120 evolution independently of either RSA or distance from the apical surface. © 2015 The Author(s).

  15. Kalman filtering and smoothing for model-based signal extraction that depend on time-varying spectra

    NARCIS (Netherlands)

    Koopman, S.J.; Wong, S.Y.

    2011-01-01

    We develop a flexible semi-parametric method for the introduction of time-varying parameters in a model-based signal extraction procedure. Dynamic model specifications for the parameters in the model are not required. We show that signal extraction based on Kalman filtering and smoothing can be made

  16. Nonlinear Dynamics Modeling and Analysis of Torsional Spring-Loaded Antibacklash Gear with Time-Varying Meshing Stiffness and Friction

    Directory of Open Access Journals (Sweden)

    Zheng Yang

    2013-01-01

    Full Text Available Torsional spring-loaded antibacklash gear which can improve the transmission precision is widely used in many precision transmission fields. It is very important to investigate the dynamic characteristics of antibacklash gear. In the paper, applied force analysis is completed in detail. Then, defining the starting point of double-gear meshing as initial position, according to the meshing characteristic of antibacklash gear, single- or double-tooth meshing states of two gear pairs and the transformation relationship at any moment are determined. Based on this, a nonlinear model of antibacklash gear with time-varying friction and meshing stiffness is proposed. The influences of friction and variations of torsional spring stiffness, damping ratio and preload on dynamic transmission error (DTE are analyzed by numerical calculation and simulation, and the results show that antibacklash gear can increase the composite meshing stiffness; when the torsional spring stiffness is large enough, the oscillating components of the DTE (ODTE and the RMS of the DTE (RDTE trend to be a constant value; the variations of ODTE and RDTE are not significant, unless preload exceeds a certain value.

  17. Quantifying geographic variation in the climatic drivers of midcontinent wetlands with a spatially varying coefficient model.

    Science.gov (United States)

    Roy, Christian

    2015-01-01

    The wetlands in the Prairie Pothole Region and in the Great Plains are notorious for their sensitivity to weather variability. These wetlands have been the focus of considerable attention because of their ecological importance and because of the expected impact of climate change. Few models in the literature, however, take into account spatial variation in the importance of wetland drivers. This is surprising given the importance spatial heterogeneity in geomorphology and climatic conditions have in the region. In this paper, I use spatially-varying coefficients to assess the variation in ecological drivers in a number of ponds observed over a 50-year period (1961-2012). I included the number of ponds observed the year before on a log scale, the log of total precipitation, and mean maximum temperature during the four previous seasons as explanatory variables. I also included a temporal component to capture change in the number of ponds due to anthropogenic disturbance. Overall, fall and spring precipitation were most important in pond abundance in the west, whereas winter and summer precipitation were the most important drivers in the east. The ponds in the east of the survey area were also more dependent on pond abundance during the previous year than those in the west. Spring temperature during the previous season influenced pond abundance; while the temperature during the other seasons had a limited effect. The ponds in the southwestern part of the survey area have been increasing independently of climatic conditions, whereas the ponds in the northeast have been steadily declining. My results underline the importance of accounting the spatial heterogeneity in environmental drivers, when working at large spatial scales. In light of my results, I also argue that assessing the impacts of climate change on wetland abundance in the spring, without more accurate climatic forecasting, will be difficult.

  18. Quantifying geographic variation in the climatic drivers of midcontinent wetlands with a spatially varying coefficient model.

    Directory of Open Access Journals (Sweden)

    Christian Roy

    Full Text Available The wetlands in the Prairie Pothole Region and in the Great Plains are notorious for their sensitivity to weather variability. These wetlands have been the focus of considerable attention because of their ecological importance and because of the expected impact of climate change. Few models in the literature, however, take into account spatial variation in the importance of wetland drivers. This is surprising given the importance spatial heterogeneity in geomorphology and climatic conditions have in the region. In this paper, I use spatially-varying coefficients to assess the variation in ecological drivers in a number of ponds observed over a 50-year period (1961-2012. I included the number of ponds observed the year before on a log scale, the log of total precipitation, and mean maximum temperature during the four previous seasons as explanatory variables. I also included a temporal component to capture change in the number of ponds due to anthropogenic disturbance. Overall, fall and spring precipitation were most important in pond abundance in the west, whereas winter and summer precipitation were the most important drivers in the east. The ponds in the east of the survey area were also more dependent on pond abundance during the previous year than those in the west. Spring temperature during the previous season influenced pond abundance; while the temperature during the other seasons had a limited effect. The ponds in the southwestern part of the survey area have been increasing independently of climatic conditions, whereas the ponds in the northeast have been steadily declining. My results underline the importance of accounting the spatial heterogeneity in environmental drivers, when working at large spatial scales. In light of my results, I also argue that assessing the impacts of climate change on wetland abundance in the spring, without more accurate climatic forecasting, will be difficult.

  19. Handling Interfaces and Time-varying Properties in Radionuclide Transport Models

    International Nuclear Information System (INIS)

    Robinson, Peter; Watson, Claire

    2010-12-01

    This report documents studies undertaken by Quintessa during 2010 in preparation for the SR-Site review that will be initiated by SSM in 2011. The studies relate to consequence analysis calculations, that is to the calculation of radionuclide release and transport if a canister is breached. A sister report documents modelling work undertaken to investigate the coupled processes relevant to copper corrosion and buffer erosion. The Q eq concept is an important part of SKB's current methodology for radionuclide transport using one-dimensional transport modelling; it is used in particular to model transport at the buffer/fracture interface. Quintessa's QPAC code has been used to investigate the Q eq approach and to explore the importance of heterogeneity in the fracture and spalling on the deposition hole surface. The key conclusions are that: - The basic approach to calculating Q eq values is sound and can be reproduced in QPAC. - The fracture resistance dominates over the diffusive resistance in the buffer except for the highest velocity cases. - Heterogeneity in the fracture, in terms of uncorrelated random variations in the fracture aperture, tends to reduce releases, so the use of a constant average aperture approach is conservative. - Narrow channels could lead to the same release as larger fractures with the same pore velocity, so a channel enhancement factor of √10 should be considered. - A spalling zone that increases the area of contact between flowing water and the buffer has the potential to increase the release significantly and changes the functional dependence of Q eq frac on the flowing velocity. Quintessa's AMBER software has previously been used to reproduce SKB's one-dimensional transport calculations and AMBER allows the use of time varying properties. This capability has been used to investigate the effects of glacial episodes on radionuclide transport. The main parameters that could be affected are sorption coefficients and flow rates. For both

  20. Models of few optical cycle solitons beyond the slowly varying envelope approximation

    Energy Technology Data Exchange (ETDEWEB)

    Leblond, H., E-mail: herve.leblond@univ-angers.fr [LUNAM University, Université d’Angers, Laboratoire de Photonique d’Angers, EA 4464, 2 Bd. Lavoisier, 49045 Angers Cedex 01 (France); Mihalache, D. [LUNAM University, Université d’Angers, Laboratoire de Photonique d’Angers, EA 4464, 2 Bd. Lavoisier, 49045 Angers Cedex 01 (France); Horia Hulubei National Institute for Physics and Nuclear Engineering, P.O.B. MG-6, 077125 Magurele (Romania); Academy of Romanian Scientists, 54 Splaiul Independentei, 050094 Bucharest (Romania)

    2013-02-15

    In the past years there was a huge interest in experimental and theoretical studies in the area of few-optical-cycle pulses and in the broader fast growing field of the so-called extreme nonlinear optics. This review concentrates on theoretical studies performed in the past decade concerning the description of few optical cycle solitons beyond the slowly varying envelope approximation (SVEA). Here we systematically use the powerful reductive expansion method (alias multiscale analysis) in order to derive simple integrable and nonintegrable evolution models describing both nonlinear wave propagation and interaction of ultrashort (femtosecond) pulses. To this aim we perform the multiple scale analysis on the Maxwell–Bloch equations and the corresponding Schrödinger–von Neumann equation for the density matrix of two-level atoms. We analyze in detail both long-wave and short-wave propagation models. The propagation of ultrashort few-optical-cycle solitons in quadratic and cubic nonlinear media are adequately described by generic integrable and nonintegrable nonlinear evolution equations such as the Korteweg–de Vries equation, the modified Korteweg–de Vries equation, the complex modified Korteweg–de Vries equation, the sine–Gordon equation, the cubic generalized Kadomtsev–Petviashvili equation, and the two-dimensional sine–Gordon equation. Moreover, we consider the propagation of few-cycle optical solitons in both (1+1)- and (2+1)-dimensional physical settings. A generalized modified Korteweg–de Vries equation is introduced in order to describe robust few-optical-cycle dissipative solitons. We investigate in detail the existence and robustness of both linearly polarized and circularly polarized few-cycle solitons, that is, we also take into account the effect of the vectorial nature of the electric field. Some of these results concerning the systematic use of the reductive expansion method beyond the SVEA can be relatively easily extended to few

  1. Combining Multi-Sensor Measurements and Models to Constrain Time-Varying Aerosol Fire Emissions

    Science.gov (United States)

    Cohen, J. B.

    2013-12-01

    . This data has been used in connection with a new analytical technique to derive the temporally and spatially varying component of the emissions. Combining this result with the Kalman Filter annual base emissions and the modelling system shows that fires can be reproduced more accurately than many other methods, including using straight Fire Radiative Power estimations. Finally, this new combined product is analyzed using measurements from the CALIPSO sensor to quantify further properties of these fires, particularly in terms of radiative forcing and vertical distribution. The results are compared against other studies of fires and the impacts on the radiative balance are quantified. One conclusion is that emissions of both BC and OC from these fires are currently underestimated and this method provides a means by which to quantify this underestimation, both in terms of absolute amount as well as space and time. A second conclusion is that this method provides a strong rationale for why relying solely on a Fire Radiative Power approach may not be appropriate, especially in a cloud-covered region such as Southeast Asia. Finally, the limitations of the use of multiple-sensors and this approach in general are detailed by looking more in-depth at the massive biomass-burning episode in June of 2013 that occurred in Southeast Asia.

  2. Function of SSA subfamily of Hsp70 within and across species varies widely in complementing Saccharomyces cerevisiae cell growth and prion propagation.

    Directory of Open Access Journals (Sweden)

    Deepak Sharma

    2009-08-01

    Full Text Available The cytosol of most eukaryotic cells contains multiple highly conserved Hsp70 orthologs that differ mainly by their spatio-temporal expression patterns. Hsp70s play essential roles in protein folding, transport or degradation, and are major players of cellular quality control processes. However, while several reports suggest that specialized functions of Hsp70 orthologs were selected through evolution, few studies addressed systematically this issue.We compared the ability of Ssa1p-Ssa4p from Saccharomyces cerevisiae and Ssa5p-Ssa8p from the evolutionary distant yeast Yarrowia lipolytica to perform Hsp70-dependent tasks when expressed as the sole Hsp70 for S. cerevisiae in vivo. We show that Hsp70 isoforms (i supported yeast viability yet with markedly different growth rates, (ii influenced the propagation and stability of the [PSI(+] and [URE3] prions, but iii did not significantly affect the proteasomal degradation rate of CFTR. Additionally, we show that individual Hsp70 orthologs did not induce the formation of different prion strains, but rather influenced the aggregation properties of Sup35 in vivo. Finally, we show that [URE3] curing by the overexpression of Ydj1p is Hsp70-isoform dependent.Despite very high homology and overlapping functions, the different Hsp70 orthologs have evolved to possess distinct activities that are required to cope with different types of substrates or stress situations. Yeast prions provide a very sensitive model to uncover this functional specialization and to explore the intricate network of chaperone/co-chaperone/substrates interactions.

  3. Genome-wide SNPs and re-sequencing of growth habit and inflorescence genes in barley: implications for association mapping in germplasm arrays varying in size and structure

    Directory of Open Access Journals (Sweden)

    Muehlbauer Gary J

    2010-12-01

    Full Text Available Abstract Background Considerations in applying association mapping (AM to plant breeding are population structure and size: not accounting for structure and/or using small populations can lead to elevated false-positive rates. The principal determinants of population structure in cultivated barley are growth habit and inflorescence type. Both are under complex genetic control: growth habit is controlled by the epistatic interactions of several genes. For inflorescence type, multiple loss-of-function alleles in one gene lead to the same phenotype. We used these two traits as models for assessing the effectiveness of AM. This research was initiated using the CAP Core germplasm array (n = 102 assembled at the start of the Barley Coordinated Agricultural Project (CAP. This array was genotyped with 4,608 SNPs and we re-sequenced genes involved in morphology, growth and development. Larger arrays of breeding germplasm were subsequently genotyped and phenotyped under the auspices of the CAP project. This provided sets of 247 accessions phenotyped for growth habit and 2,473 accessions phenotyped for inflorescence type. Each of the larger populations was genotyped with 3,072 SNPs derived from the original set of 4,608. Results Significant associations with SNPs located in the vicinity of the loci involved in growth habit and inflorescence type were found in the CAP Core. Differentiation of true and spurious associations was not possible without a priori knowledge of the candidate genes, based on re-sequencing. The re-sequencing data were used to define allele types of the determinant genes based on functional polymorphisms. In a second round of association mapping, these synthetic markers based on allele types gave the most significant associations. When the synthetic markers were used as anchor points for analysis of interactions, we detected other known-function genes and candidate loci involved in the control of growth habit and inflorescence type. We

  4. Research on Adaptive Neural Network Control System Based on Nonlinear U-Model with Time-Varying Delay

    Directory of Open Access Journals (Sweden)

    Fengxia Xu

    2014-01-01

    Full Text Available U-model can approximate a large class of smooth nonlinear time-varying delay system to any accuracy by using time-varying delay parameters polynomial. This paper proposes a new approach, namely, U-model approach, to solving the problems of analysis and synthesis for nonlinear systems. Based on the idea of discrete-time U-model with time-varying delay, the identification algorithm of adaptive neural network is given for the nonlinear model. Then, the controller is designed by using the Newton-Raphson formula and the stability analysis is given for the closed-loop nonlinear systems. Finally, illustrative examples are given to show the validity and applicability of the obtained results.

  5. The Investigation of EM Scattering from the Time-Varying Overturning Wave Crest Model by the IEM

    Directory of Open Access Journals (Sweden)

    Xiao Meng

    2016-01-01

    Full Text Available Investigation of the electromagnetic (EM scattering of time-varying overturning wave crests is a worthwhile endeavor. Overturning wave crest is one of the reasons of sea spike generation, which increases the probability of false radar alarms and reduces the performance of multitarget detection in the environment. A three-dimensional (3D time-varying overturning wave crest model is presented in this paper; this 3D model is an improvement of the traditional two-dimensional (2D time-varying overturning wave crest model. The integral equation method (IEM was employed to investigate backward scattering radar cross sections (RCS at various incident angles of the 3D overturning wave crest model. The super phenomenon, where the intensity of horizontal polarization scattering is greater than that of vertical polarization scattering, is an important feature of sea spikes. Simulation results demonstrate that super phenomena may occur in some time samples as variations in the overturning wave crest.

  6. Modeling the time-varying interaction between surface water and groundwater bodies

    Science.gov (United States)

    Gliege, Steffen; Steidl, Jörg; Lischeid, Gunnar; Merz, Christoph

    2016-04-01

    The countless kettle holes (small lakes) in the Late Pleistocene landscapes of Northern Europe have important ecological and hydrological functions. On the one hand they act as depressions in which water and solutes of mainly agriculturally used catchments accumulate. On the other hand they operate as biochemical reactors with respect to greenhouse gas emissions, carbon sequestration, and as major sinks for nutrients and contaminants. Even small kettle holes often are hydraulically connected to the uppermost groundwater system: Groundwater discharges into the kettle hole on one side, and the aquifer is recharged from the kettle hole water body on the other side. Thus kettle hole biogeochemical processes are both affected by groundwater and vice versa. Groundwater flow direction and velocity into and out of the kettle hole often is not stable over time. Groundwater flow direction might reverse at the downstream part, resulting in repeated recycling of groundwater and corresponding solute turnover within the kettle holes. A sound understanding of this intricate interplay is a necessary prerequisite for better understanding of the biogeochemistry of this terrestrial-aquatic interface. A numerical experiment was used to quantify the lateral solute exchange between a kettle hole and the surrounding groundwater. A vertical cross section through the real existing catchment of a kettle hole was chosen. Glacial till represents the lower boundary. The heterogeneity of the subsurface was reproduced by various parameterizations of the soil hydraulic properties as well as varying the thickness of the unconfined aquifer or the lateral boundary conditions. In total 24 different parameterizations were implemented in the modeling software HydroGeoSphere (HGS). HGS is suitable to calculate the fluid exchange between surface and subsurface simultaneously and in a physically based way. The simulation runs were done for the period from November 1994 to October 2014. All results were

  7. VISUAL AND STATISTICAL ANALYSIS OF DIGITAL ELEVATION MODELS GENERATED USING IDW INTERPOLATOR WITH VARYING POWERS

    Directory of Open Access Journals (Sweden)

    F. F. Asal

    2012-07-01

    Full Text Available Digital elevation data obtained from different Engineering Surveying techniques is utilized in generating Digital Elevation Model (DEM, which is employed in many Engineering and Environmental applications. This data is usually in discrete point format making it necessary to utilize an interpolation approach for the creation of DEM. Quality assessment of the DEM is a vital issue controlling its use in different applications; however this assessment relies heavily on statistical methods with neglecting the visual methods. The research applies visual analysis investigation on DEMs generated using IDW interpolator of varying powers in order to examine their potential in the assessment of the effects of the variation of the IDW power on the quality of the DEMs. Real elevation data has been collected from field using total station instrument in a corrugated terrain. DEMs have been generated from the data at a unified cell size using IDW interpolator with power values ranging from one to ten. Visual analysis has been undertaken using 2D and 3D views of the DEM; in addition, statistical analysis has been performed for assessment of the validity of the visual techniques in doing such analysis. Visual analysis has shown that smoothing of the DEM decreases with the increase in the power value till the power of four; however, increasing the power more than four does not leave noticeable changes on 2D and 3D views of the DEM. The statistical analysis has supported these results where the value of the Standard Deviation (SD of the DEM has increased with increasing the power. More specifically, changing the power from one to two has produced 36% of the total increase (the increase in SD due to changing the power from one to ten in SD and changing to the powers of three and four has given 60% and 75% respectively. This refers to decrease in DEM smoothing with the increase in the power of the IDW. The study also has shown that applying visual methods supported

  8. Global Exponential Stability of Positive Almost Periodic Solutions for a Fishing Model with a Time-Varying Delay

    Directory of Open Access Journals (Sweden)

    Hong Zhang

    2014-01-01

    Full Text Available This paper is concerned with a nonautonomous fishing model with a time-varying delay. Under proper conditions, we employ a novel argument to establish a criterion on the global exponential stability of positive almost periodic solutions of the model with almost periodic coefficients and delays. Moreover, an example and its numerical simulation are given to illustrate the main results.

  9. Spatially-varied erosion modeling using WEPP for timber harvested and burned hillslopes

    Science.gov (United States)

    Peter R. Robichaud; T. M. Monroe

    1997-01-01

    Spatially-varied hydrologic surface conditions exist on steep hillslopes after timber harvest operation and site preparation burning treatments. Site preparation burning creates low- and high-severity burn surface conditions or disturbances. In this study, a hillslope was divided into multiple combinations of surface conditions to determine how their spatial...

  10. Identification of Time Varying Civil Engineering Structures using Multivariate Recursive Time Domain Models

    DEFF Research Database (Denmark)

    Andersen, P.; Skjærbæk, P. S.; Kirkegaard, Poul Henning

    with the smoothed quanties which have been obtained from SARCOF. The results show the usefulness of the technique for identification of a time varying civil engineering structure. It is found that all the techniques give reliable estiates of the frequencies of the two lowest modes and the first mode shape. Only...

  11. Time-varying coefficient vector autoregressions model based on dynamic correlation with an application to crude oil and stock markets.

    Science.gov (United States)

    Lu, Fengbin; Qiao, Han; Wang, Shouyang; Lai, Kin Keung; Li, Yuze

    2017-01-01

    This paper proposes a new time-varying coefficient vector autoregressions (VAR) model, in which the coefficient is a linear function of dynamic lagged correlation. The proposed model allows for flexibility in choices of dynamic correlation models (e.g. dynamic conditional correlation generalized autoregressive conditional heteroskedasticity (GARCH) models, Markov-switching GARCH models and multivariate stochastic volatility models), which indicates that it can describe many types of time-varying causal effects. Time-varying causal relations between West Texas Intermediate (WTI) crude oil and the US Standard and Poor's 500 (S&P 500) stock markets are examined by the proposed model. The empirical results show that their causal relations evolve with time and display complex characters. Both positive and negative causal effects of the WTI on the S&P 500 in the subperiods have been found and confirmed by the traditional VAR models. Similar results have been obtained in the causal effects of S&P 500 on WTI. In addition, the proposed model outperforms the traditional VAR model. Copyright © 2016 Elsevier Ltd. All rights reserved.

  12. Control-focused, nonlinear and time-varying modelling of dielectric elastomer actuators with frequency response analysis

    International Nuclear Information System (INIS)

    Jacobs, William R; Dodd, Tony J; Anderson, Sean R; Wilson, Emma D; Porrill, John; Assaf, Tareq; Rossiter, Jonathan

    2015-01-01

    Current models of dielectric elastomer actuators (DEAs) are mostly constrained to first principal descriptions that are not well suited to the application of control design due to their computational complexity. In this work we describe an integrated framework for the identification of control focused, data driven and time-varying DEA models that allow advanced analysis of nonlinear system dynamics in the frequency-domain. Experimentally generated input–output data (voltage-displacement) was used to identify control-focused, nonlinear and time-varying dynamic models of a set of film-type DEAs. The model description used was the nonlinear autoregressive with exogenous input structure. Frequency response analysis of the DEA dynamics was performed using generalized frequency response functions, providing insight and a comparison into the time-varying dynamics across a set of DEA actuators. The results demonstrated that models identified within the presented framework provide a compact and accurate description of the system dynamics. The frequency response analysis revealed variation in the time-varying dynamic behaviour of DEAs fabricated to the same specifications. These results suggest that the modelling and analysis framework presented here is a potentially useful tool for future work in guiding DEA actuator design and fabrication for application domains such as soft robotics. (paper)

  13. Wide-field schematic eye models with gradient-index lens.

    Science.gov (United States)

    Goncharov, Alexander V; Dainty, Chris

    2007-08-01

    We propose a wide-field schematic eye model, which provides a more realistic description of the optical system of the eye in relation to its anatomical structure. The wide-field model incorporates a gradient-index (GRIN) lens, which enables it to fulfill properties of two well-known schematic eye models, namely, Navarro's model for off-axis aberrations and Thibos's chromatic on-axis model (the Indiana eye). These two models are based on extensive experimental data, which makes the derived wide-field eye model also consistent with that data. A mathematical method to construct a GRIN lens with its iso-indicial contours following the optical surfaces of given asphericity is presented. The efficiency of the method is demonstrated with three variants related to different age groups. The role of the GRIN structure in relation to the lens paradox is analyzed. The wide-field model with a GRIN lens can be used as a starting design for the eye inverse problem, i.e., reconstructing the optical structure of the eye from off-axis wavefront measurements. Anatomically more accurate age-dependent optical models of the eye could ultimately help an optical designer to improve wide-field retinal imaging.

  14. Perfect fluid Bianchi Type-I cosmological models with time varying G ...

    Indian Academy of Sciences (India)

    (27). From eq. (27), we observe that Λ is a constant in the absence of matter (Tij = 0) implying that matter is essential for a time varying Λ. In the field eqs (4), Λ accounts for vacuum energy with its energy density ρv and isotropic pressure pv satisfying the equation of state pv = −ρv = −. Λ. 8πG . The usual conservation law for ...

  15. Diarrhea Morbidities in Small Areas: Accounting for Non-Stationarity in Sociodemographic Impacts using Bayesian Spatially Varying Coefficient Modelling.

    Science.gov (United States)

    Osei, F B; Stein, A

    2017-08-30

    Model-based estimation of diarrhea risk and understanding the dependency on sociodemographic factors is important for prioritizing interventions. It is unsuitable to calibrate regression model with a single set of coefficients, especially for large spatial domains. For this purpose, we developed a Bayesian hierarchical varying coefficient model to account for non-stationarity in the covariates. We used the integrated nested Laplace approximation for parameter estimation. Diarrhea morbidities in Ghana motivated our empirical study. Results indicated improvement regarding model fit and epidemiological benefits. The findings highlighted substantial spatial, temporal, and spatio-temporal heterogeneities in both diarrhea risk and the coefficients of the sociodemographic factors. Diarrhea risk in peri-urban and urban districts were 13.2% and 10.8% higher than rural districts, respectively. The varying coefficient model indicated further details, as the coefficients varied across districts. A unit increase in the proportion of inhabitants with unsafe liquid waste disposal was found to increase diarrhea risk by 11.5%, with higher percentages within the south-central parts through to the south-western parts. Districts with safe and unsafe drinking water sources unexpectedly had a similar risk, as were districts with safe and unsafe toilets. The findings show that site-specific interventions need to consider the varying effects of sociodemographic factors.

  16. Uncertainty Analysis Framework - Hanford Site-Wide Groundwater Flow and Transport Model

    Energy Technology Data Exchange (ETDEWEB)

    Cole, Charles R.; Bergeron, Marcel P.; Murray, Christopher J.; Thorne, Paul D.; Wurstner, Signe K.; Rogers, Phillip M.

    2001-11-09

    Pacific Northwest National Laboratory (PNNL) embarked on a new initiative to strengthen the technical defensibility of the predictions being made with a site-wide groundwater flow and transport model at the U.S. Department of Energy Hanford Site in southeastern Washington State. In FY 2000, the focus of the initiative was on the characterization of major uncertainties in the current conceptual model that would affect model predictions. The long-term goals of the initiative are the development and implementation of an uncertainty estimation methodology in future assessments and analyses using the site-wide model. This report focuses on the development and implementation of an uncertainty analysis framework.

  17. Comparison of radar and gauge precipitation data in watershed models across varying spatial and temporal scales

    Science.gov (United States)

    Precipitation is a key control on watershed hydrologic modelling output, with errors in rainfall propagating through subsequent stages of water quantity and quality analysis. Most watershed models incorporate precipitation data from rain gauges; higher-resolution data sources are...

  18. Constructing Regional Groundwater Models from Geophysical Data of Varying Type, Age, and Quality

    DEFF Research Database (Denmark)

    Vest Christiansen, Anders; Auken, Esben; Marker, Pernille Aabye

    is calibrated against observed lithological data. In other words, the translator function interprets the geophysical resistivities into a 3D clay fraction model and the 3D clay fraction model is then turned into a zonation for the hydrological model by a K-means clustering. We present the methodology by show...

  19. Modelling the solidification of ductile cast iron parts with varying wall thicknesses

    DEFF Research Database (Denmark)

    Bjerre, Mathias Karsten; Tiedje, Niels Skat; Thorborg, Jesper

    2015-01-01

    In the present paper modelling the solidification of cast iron parts is considered. Common for previous efforts in this field is that they have mainly considered thin walled to medium thickness castings. Hence, a numerical model combining the solidification model presented by Lesoultet al. [1] wi...

  20. Global Stability of Multigroup SIRS Epidemic Model with Varying Population Sizes and Stochastic Perturbation around Equilibrium

    Directory of Open Access Journals (Sweden)

    Xiaoming Fan

    2014-01-01

    Full Text Available We discuss multigroup SIRS (susceptible, infectious, and recovered epidemic models with random perturbations. We carry out a detailed analysis on the asymptotic behavior of the stochastic model; when reproduction number ℛ0>1, we deduce the globally asymptotic stability of the endemic equilibrium by measuring the difference between the solution and the endemic equilibrium of the deterministic model in time average. Numerical methods are employed to illustrate the dynamic behavior of the model and simulate the system of equations developed. The effect of the rate of immunity loss on susceptible and recovered individuals is also analyzed in the deterministic model.

  1. Bivariate functional data clustering: grouping streams based on a varying coefficient model of the stream water and air temperature relationship

    Science.gov (United States)

    H. Li; X. Deng; Andy Dolloff; E. P. Smith

    2015-01-01

    A novel clustering method for bivariate functional data is proposed to group streams based on their water–air temperature relationship. A distance measure is developed for bivariate curves by using a time-varying coefficient model and a weighting scheme. This distance is also adjusted by spatial correlation of streams via the variogram. Therefore, the proposed...

  2. Long-term prediction of fish growth under varying ambient temperature using a multiscale dynamic model

    Directory of Open Access Journals (Sweden)

    Radde Nicole

    2009-11-01

    Full Text Available Abstract Background Feed composition has a large impact on the growth of animals, particularly marine fish. We have developed a quantitative dynamic model that can predict the growth and body composition of marine fish for a given feed composition over a timespan of several months. The model takes into consideration the effects of environmental factors, particularly temperature, on growth, and it incorporates detailed kinetics describing the main metabolic processes (protein, lipid, and central metabolism known to play major roles in growth and body composition. Results For validation, we compared our model's predictions with the results of several experimental studies. We showed that the model gives reliable predictions of growth, nutrient utilization (including amino acid retention, and body composition over a timespan of several months, longer than most of the previously developed predictive models. Conclusion We demonstrate that, despite the difficulties involved, multiscale models in biology can yield reasonable and useful results. The model predictions are reliable over several timescales and in the presence of strong temperature fluctuations, which are crucial factors for modeling marine organism growth. The model provides important improvements over existing models.

  3. Accurate gradually varied flow model for water surface profile in circular channels

    Directory of Open Access Journals (Sweden)

    Ali R. Vatankhah

    2013-12-01

    Full Text Available The paper presents an accurate approximation of the Froude number (F for circular channels which is part of the gradually varied flow (GVF equation. The proposed approximation is developed using optimization technique to minimize the relative error between the exact and estimated values, resulting in a maximum error of 0.6% compared with 14% for the existing approximate method. The approximate F is used in the governing GVF equation to develop an exact analytical solution of this equation using the concept of simplest partial fractions. A comparison of the proposed and approximate solutions for backwater length shows that the error of the existing approximate solution could reach up to 30% for large normal flow depths.

  4. 1-D free-electron laser model without the slowly-varying approximation

    Science.gov (United States)

    Kim, Chang-Bae; Uhm, Yong-Woong; Lee, Jae-Koo

    1995-04-01

    A free-electron laser amplifier in the strong pump regime is studied without the slowly-varying envelope approximation (SVEA). A one-dimensional time-dependent code is used for numerical simulation of the evolution of the electron energy, the synchrotron phase of the electrons and the electric field of the laser. Electron-laser-facility-like parameters are used for the strong pump regime. Since the cooperation length is much smaller than the electron beam length, a steady-state solution is found to exist. Comparisons are made with the earlier results with the SVEA and the difference turns out to be negligible. It can be concluded that the SVEA can be applied to a wider class of problems than it sets out to be appropriate for.

  5. LiDAR based prediction of forest biomass using hierarchical models with spatially varying coefficients

    Science.gov (United States)

    Chad Babcock; Andrew O. Finley; John B. Bradford; Randy Kolka; Richard Birdsey; Michael G. Ryan

    2015-01-01

    Many studies and production inventory systems have shown the utility of coupling covariates derived from Light Detection and Ranging (LiDAR) data with forest variables measured on georeferenced inventory plots through regression models. The objective of this study was to propose and assess the use of a Bayesian hierarchical modeling framework that accommodates both...

  6. Time-Varying Combinations of Bayesian Dynamic Models and Equity Momentum Strategies

    NARCIS (Netherlands)

    N. Basturk (Nalan); S. Grassi (Stefano); L.F. Hoogerheide (Lennart); H.K. van Dijk (Herman)

    2016-01-01

    markdownabstractA novel dynamic asset-allocation approach is proposed where portfolios as well as portfolio strategies are updated at every decision period based on their past performance. For modeling, a general class of models is specified that combines a dynamic factor and a vector autoregressive

  7. Early marketing matters : A time-varying parameter approach to persistence modeling

    NARCIS (Netherlands)

    Osinga, E.C.; Leeflang, P.S.H.; Wieringa, J.E.

    Are persistent marketing effects most likely to appear right after the introduction of a product? The authors give an affirmative answer to this question by developing a model that explicitly reports how persistent and transient marketing effects evolve over time. The proposed model provides

  8. Mathematical Modeling And Simulation of Photo-Voltaic Converter Operation when Varying Different Parameters

    Directory of Open Access Journals (Sweden)

    Miholca CONSTANTIN

    2008-07-01

    Full Text Available The paper presents a method of mathematical modelling of a solar converter using the results of full-scale testing. The advantages of analytical modelling method applied to photovoltaic systems are also presented; this is because the model parameters are directly measurable by data acquisition from the photovoltaic field consisting of photovoltaic cells type Z - (mono-crystalline photovoltaic. The model parameter also includes both the photovoltaic cell characteristics as a device (forming the photovoltaic field and the temperature influence on the photovoltaic field performance. The results of the photovoltaic model numerical simulation (PV to the major parameters conversion variation can also be used to design and assess the performance of low and medium - power photovoltaic systems operating in single regime (to supply the home appliances.

  9. Effects of ion strength and ion pairing on (plant-wide) modelling of anaerobic digestion processes

    DEFF Research Database (Denmark)

    Flores-Alsina, Xavier; Mbamba, Christian Kazadi; Solon, Kimberly

    2014-01-01

    The objective of this study is to show the influence of ionic strength (as activity corrections) andion pairing on (plant-wide) modelling of anaerobic digestion processes in wastewater treatment plants(WWTPs). Using the Benchmark Simulation Model No. 2 (BSM2) as a case study, this paper presents ...

  10. Time-varying disaster risk models: An empirical assessment of the Rietz-Barro hypothesis

    DEFF Research Database (Denmark)

    Irarrazabal, Alfonso; Parra-Alvarez, Juan Carlos

    This paper revisits the fit of disaster risk models where a representative agent has recursive preferences and the probability of a macroeconomic disaster changes over time. We calibrate the model as in Wachter (2013) and perform two sets of tests to assess the empirical performance of the model ...... and hence to reduce the Sharpe Ratio, a lower elasticity of substitution generates a more reasonable level for the equity risk premium and for the volatility of the government bond returns without compromising the ability of the price-dividend ratio to predict excess returns....

  11. A 3D Finite Element Model with Improved Spatial Resolution to Investigate the Effect of Varying Viscosity on Antarctica

    Science.gov (United States)

    Blank, B.; van der Wal, W.; Pappa, F.; Ebbing, J.

    2017-12-01

    B. Blank1, H. Hu1, W. van der Wal1, F Pappa2, J. Ebbing21Delft University of Technology 2Christian-Albrechts-University of KielSince the beginning of the 2000's time-variable gravity data from GRACE has proved to be an effective method for mapping ice mass loss in Antarctica. However, Glacial Isostatic Adjustment (GIA) models are required to correct for GIA induced mass changes. While most GIA models have adopted an Earth model that only varies radially in parameters, it has long been clear that the Earth structure also varies with longitude and latitude. For this study a new global 3D GIA model has been developed within the finite element software package ABAQUS, which can be modified to operate on a spatial resolution down to 50 km locally. The model is being benchmarked against normal model models for surface loading. It will be used to investigate the effects of a 3D varying lithosphere and upper asthenosphere in Antarctica. Viscosity which will be computed from temperature estimates with laboratory based flow laws. A new 3D temperature map of the Antarctic lithosphere has been developed within ESA's GOCE+ project based on seismic data as well as on GOCE and GRACE inferred gravity gradients. Output from the GIA model with this new temperature estimates will be compared to that of 1D viscosity profiles and other recent 3D viscosity models based on seismic data. From these side to side comparisons we want to investigate the influence of the viscosity map on uplift rates and horizontal movement. Finally the results can be compared to GPS measurement to investigate the validity of all models.

  12. System-wide Benchmark Simulation Model for integrated analysis of urban wastewater systems

    DEFF Research Database (Denmark)

    Saagi, R.; Flores-Alsina, X.; Gernaey, K. V.

    Interactions between different components (sewer, wastewater treatment plant (WWTP) and river) of an urban wastewater system (UWS) are widely recognized (Benedetti et al., 2013). This has resulted in an increasing interest in the modelling of the UWS. System-wide models take into account the inte......Interactions between different components (sewer, wastewater treatment plant (WWTP) and river) of an urban wastewater system (UWS) are widely recognized (Benedetti et al., 2013). This has resulted in an increasing interest in the modelling of the UWS. System-wide models take into account...... the interactions between the different subsystems and allow us to operate the UWS in a holistic manner. Such an integrated approach makes it feasible to evaluate control strategies at an UWS scale with the aim of improving receiving water quality. Currently, benchmark simulation models are widely used to evaluate......) measures. We demonstrate the need of using a holistic approach due to the strong interactions between the elements of the UWS (catchment, WWTP and sewer)....

  13. A dynamic capacity degradation model and its applications considering varying load for a large format Li-ion battery

    International Nuclear Information System (INIS)

    Ouyang, Minggao; Feng, Xuning; Han, Xuebing; Lu, Languang; Li, Zhe; He, Xiangming

    2016-01-01

    Highlights: • A dynamic capacity degradation model for large format Li-ion battery is proposed. • The change of the model parameters directly link with the degradation mechanisms. • The model can simulate the fading behavior of Li-ion battery under varying loads. • The model can help evaluate the longevity of a battery system under specific load. • The model can help predict the evolution of cell variations within a battery pack. - Abstract: The capacity degradation of the lithium ion battery should be well predicted during battery system design. Therefore, high-fidelity capacity degradation models that are suitable for the task of capacity prediction are required. This paper proposes a novel capacity degradation model that can simulate the degradation dynamics under varying working conditions for large-format lithium ion batteries. The degradation model is built based on a mechanistic and prognostic model (MPM) whose parameters are closely linked with the degradation mechanisms of lithium ion batteries. Chemical kinetics was set to drive the parameters of the MPM to change as capacity degradation continues. With the dynamic parameters of the MPM, the capacity predicted by the degradation model decreases as the cycle continues. Accelerated aging tests were conducted on three types of commercial lithium ion batteries to calibrate the capacity degradation model. The good fit with the experimental data indicates that the model can capture the degradation mechanisms well for different types of commercial lithium ion batteries. Furthermore, the calibrated model can be used to (1) evaluate the longevity of a battery system under a specific working load and (2) predict the evolution of cell variations within a battery pack when different cell works at different conditions. Correlated applications are discussed using the calibrated degradation model.

  14. Comparison of the kinetics of different Markov models for ligand binding under varying conditions

    Science.gov (United States)

    Martini, Johannes W. R.; Habeck, Michael

    2015-03-01

    We recently derived a Markov model for macromolecular ligand binding dynamics from few physical assumptions and showed that its stationary distribution is the grand canonical ensemble [J. W. R. Martini, M. Habeck, and M. Schlather, J. Math. Chem. 52, 665 (2014)]. The transition probabilities of the proposed Markov process define a particular Glauber dynamics and have some similarity to the Metropolis-Hastings algorithm. Here, we illustrate that this model is the stochastic analog of (pseudo) rate equations and the corresponding system of differential equations. Moreover, it can be viewed as a limiting case of general stochastic simulations of chemical kinetics. Thus, the model links stochastic and deterministic approaches as well as kinetics and equilibrium described by the grand canonical ensemble. We demonstrate that the family of transition matrices of our model, parameterized by temperature and ligand activity, generates ligand binding kinetics that respond to changes in these parameters in a qualitatively similar way as experimentally observed kinetics. In contrast, neither the Metropolis-Hastings algorithm nor the Glauber heat bath reflects changes in the external conditions correctly. Both converge rapidly to the stationary distribution, which is advantageous when the major interest is in the equilibrium state, but fail to describe the kinetics of ligand binding realistically. To simulate cellular processes that involve the reversible stochastic binding of multiple factors, our pseudo rate equation model should therefore be preferred to the Metropolis-Hastings algorithm and the Glauber heat bath, if the stationary distribution is not of only interest.

  15. Comparison of the kinetics of different Markov models for ligand binding under varying conditions

    International Nuclear Information System (INIS)

    Martini, Johannes W. R.; Habeck, Michael

    2015-01-01

    We recently derived a Markov model for macromolecular ligand binding dynamics from few physical assumptions and showed that its stationary distribution is the grand canonical ensemble [J. W. R. Martini, M. Habeck, and M. Schlather, J. Math. Chem. 52, 665 (2014)]. The transition probabilities of the proposed Markov process define a particular Glauber dynamics and have some similarity to the Metropolis-Hastings algorithm. Here, we illustrate that this model is the stochastic analog of (pseudo) rate equations and the corresponding system of differential equations. Moreover, it can be viewed as a limiting case of general stochastic simulations of chemical kinetics. Thus, the model links stochastic and deterministic approaches as well as kinetics and equilibrium described by the grand canonical ensemble. We demonstrate that the family of transition matrices of our model, parameterized by temperature and ligand activity, generates ligand binding kinetics that respond to changes in these parameters in a qualitatively similar way as experimentally observed kinetics. In contrast, neither the Metropolis-Hastings algorithm nor the Glauber heat bath reflects changes in the external conditions correctly. Both converge rapidly to the stationary distribution, which is advantageous when the major interest is in the equilibrium state, but fail to describe the kinetics of ligand binding realistically. To simulate cellular processes that involve the reversible stochastic binding of multiple factors, our pseudo rate equation model should therefore be preferred to the Metropolis-Hastings algorithm and the Glauber heat bath, if the stationary distribution is not of only interest

  16. A model for calculating the quantum potential for time-varying multi-slit systems

    CERN Document Server

    Bracken, P

    2003-01-01

    A model is proposed and applied to the single and double slit experiments. The model is designed to take into account a change in the experimental setup. This includes opening and closing the slits in some way, or by introducing some object which can be thought of as having a perturbing effect on the space-time background. The single and double slits could be closed simultaneously or one after the other in such a way as to transform from one arrangement to the other. The model consists in using modified free particle propagators in such a way that the required integrals for calculating the overall wave function can be calculated. It is supposed that these constants reflect the ambient structure as the experimental situation is modified, and might be calculable with regard to a more fundamental theory.

  17. Numerical modeling of sandwich panel response to ballistic loading - energy balance for varying impactor geometries

    DEFF Research Database (Denmark)

    Kepler, Jørgen Asbøl; Hansen, Michael Rygaard

    2007-01-01

    A sandwich panel is described by an axisymmetric lumped mass- spring model. The panel compliance is simplified, considering only core shear deformation uniformly distributed across the core thickness. Transverse penetrating impact is modeled for impactors of diameters comparable to the panel thic...... between the impactor and the panel during penetration. The force histories are selected from a primary criterion of conservation of linear momentum in the impactor-panel system, and evaluated according to agreement with the total measured energy balance....... thickness but significantly smaller than panel length dimensions. Experimental data for the total loss in impactor kinetic energy and momentum and estimated damage energy are described. For a selection of impactor tip shapes, the numerical model is used to evaluate different simplified force histories...

  18. Nitric oxide levels in the aqueous humor vary in different ocular hypertension experimental models

    Directory of Open Access Journals (Sweden)

    Da-Wen Lu

    2014-12-01

    Full Text Available This study investigated the relationships among intraocular pressure (IOP, nitric oxide (NO levels, and aqueous flow rates in experimental ocular hypertension models. A total of 75 rabbits were used. One of four different materials [i.e., α-chymotrypsin, latex microspheres (Polybead, red blood cell ghosts, or sodium hyaluronate (Healon GV] was injected into the eyes of the 15 animals in each experimental group; the remaining 15 rabbits were reserved for a control group. The IOP changes in the five groups were recorded on postinduction Days 1–3, Day 7, Day 14, Day 30, Day 60, Day 90, and Day 120. On postinduction Day 7, the dynamics and NO levels in the aqueous humor were recorded. Significant IOP elevations were induced by α-chymotrypsin (p < 0.01 and Polybead (p < 0.01 on each postinduction day. In the red blood cell ghosts model, significant elevations (p < 0.01 were found on postinduction Days 1–3; Healon GV significantly elevated IOP (p < 0.01 on postinduction Day 1 and Day 2. On postinduction Day 7, the aqueous humor NO levels increased significantly in the models of α-chymotrypsin, Polybead, and red blood cell ghosts (all p < 0.01, while the aqueous flow rates were significantly reduced in the models of α-chymotrypsin and Polybead (p < 0.005. Persistent ocular hypertension models were induced with α-chymotrypsin and Polybead in the rabbits. The Polybead model exhibited the characteristic of an increased aqueous humor NO level, similar to human eyes with acute angle-closure glaucoma and neovascular glaucoma.

  19. Modeling hyporheic exchange and in-stream transport with time-varying transit time distributions

    Science.gov (United States)

    Ball, A.; Harman, C. J.; Ward, A. S.

    2014-12-01

    Transit time distributions (TTD) are used to understand in-stream transport and exchange with the hyporheic zone by quantifying the probability of water (and of dissolved material) taking time T to traverse the stream reach control volume. However, many studies using this method assume a TTD that is time-invariant, despite the time-variability of the streamflow. Others assume that storage is 'randomly sampled' or 'well-mixed' with a fixed volume or fixed exchange rate. Here we present a formulation for a time-variable TTD that relaxes both the time-invariant and 'randomly sampled' assumptions and only requires a few parameters. The framework is applied to transient storage, representing some combination of in-stream and hyporheic storage, along a stream reach. This approach does not assume that hyporheic and dead-zone storage is fixed or temporally-invariant, and allows for these stores to be sampled in more physically representative ways determined by the system itself. Instead of using probability distributions of age, probability distributions of storage (ranked by age) called Ω functions are used to describe how the off-stream storage is sampled in the outflow. Here the Ω function approach is used to describe hyporheic exchange during diurnal fluctuations in streamflow in a gaining reach of the H.J. Andrews Experimental Forest. The breakthrough curves of salt slugs injected four hours apart over a 28-hour period show a systematic variation in transit time distribution. This new approach allows us to relate these salt slug TTDs to a corresponding time-variation in the Ω function, which can then be related to changes in in-stream storage and hyporheic zone mobilization under varying flow conditions. Thus, we can gain insights into how channel storage and hyporheic exchange are changing through time without having to specify difficult to measure or unmeasurable quantities of our system, such as total storage.

  20. Slab detachment in laterally varying subduction zones: 3-D numerical modeling

    NARCIS (Netherlands)

    Duretz, T.; Gerya, T.V.; Spakman, W.|info:eu-repo/dai/nl/074103164

    Understanding the three-dimensional (3-D) dynamics of subduction-collision systems is a longstanding challenge in geodynamics. We investigate the impact of slab detachment in collision systems that are subjected to along-trench variations. High-resolution thermomechanical numerical models,

  1. A Gradually Varied Approach to Model Turbidity Currents in Submarine Channels

    Science.gov (United States)

    Bolla Pittaluga, M.; Frascati, A.; Falivene, O.

    2018-01-01

    We develop a one-dimensional model to describe the dynamics of turbidity current flowing in submarine channels. We consider the flow as a steady state polydisperse suspension accounting for water detrainment from the clear water-turbid interface, for spatial variations of the channel width and for water and sediment lateral overspill from the channel levees. Moreover, we account for sediment exchange with the bed extending the model to deal with situations where the current meets a nonerodible bed. Results show that when water detrainment is accounted for, the flow thickness becomes approximately constant proceeding downstream. Similarly, in the presence of channel levees, the flow tends to adjust to channel relief through the lateral loss of water and sediment. As more mud is spilled above the levees relative to sand, the flow becomes more sand rich proceeding downstream when lateral overspill is present. Velocity and flow thickness predicted by the model are then validated by showing good agreement with laboratory observations. Finally, the model is applied to the Monterey Canyon bathymetric data matching satisfactorily the December 2002 event field measurements and predicting a runout length consistent with observations.

  2. Modeling complex flow structures and drag around a submerged plant of varied posture

    Science.gov (United States)

    Boothroyd, Richard J.; Hardy, Richard J.; Warburton, Jeff; Marjoribanks, Timothy I.

    2017-04-01

    Although vegetation is present in many rivers, the bulk of past work concerned with modeling the influence of vegetation on flow has considered vegetation to be morphologically simple and has generally neglected the complexity of natural plants. Here we report on a combined flume and numerical model experiment which incorporates time-averaged plant posture, collected through terrestrial laser scanning, into a computational fluid dynamics model to predict flow around a submerged riparian plant. For three depth-limited flow conditions (Reynolds number = 65,000-110,000), plant dynamics were recorded through high-definition video imagery, and the numerical model was validated against flow velocities collected with an acoustic Doppler velocimeter. The plant morphology shows an 18% reduction in plant height and a 14% increase in plant length, compressing and reducing the volumetric canopy morphology as the Reynolds number increases. Plant shear layer turbulence is dominated by Kelvin-Helmholtz type vortices generated through shear instability, the frequency of which is estimated to be between 0.20 and 0.30 Hz, increasing with Reynolds number. These results demonstrate the significant effect that the complex morphology of natural plants has on in-stream drag, and allow a physically determined, species-dependent drag coefficient to be calculated. Given the importance of vegetation in river corridor management, the approach developed here demonstrates the necessity to account for plant motion when calculating vegetative resistance.

  3. Time-Varying Scheme for Noncentralized Model Predictive Control of Large-Scale Systems

    Directory of Open Access Journals (Sweden)

    Alfredo Núñez

    2015-01-01

    Full Text Available The noncentralized model predictive control (NC-MPC framework in this paper refers to any distributed, hierarchical, or decentralized model predictive controller (or a combination of them the structure of which can change over time and the control actions of which are not obtained based on a centralized computation. Within this framework, we propose suitable online methods to decide which information is shared and how this information is used between the different local predictive controllers operating in a decentralized, distributed, and/or hierarchical way. Evaluating all the possible structures of the NC-MPC controller leads to a combinatorial optimization problem. Therefore, we also propose heuristic reduction methods, to keep the number of NC-MPC problems tractable to be solved. To show the benefits of the proposed framework, a case study of a set of coupled water tanks is presented.

  4. Numerical modeling of sandwich panel response to ballistic loading - energy balance for varying impactor geometries

    DEFF Research Database (Denmark)

    Kepler, Jørgen Asbøl; Hansen, Michael Rygaard

    2007-01-01

    thickness but significantly smaller than panel length dimensions. Experimental data for the total loss in impactor kinetic energy and momentum and estimated damage energy are described. For a selection of impactor tip shapes, the numerical model is used to evaluate different simplified force histories...... between the impactor and the panel during penetration. The force histories are selected from a primary criterion of conservation of linear momentum in the impactor-panel system, and evaluated according to agreement with the total measured energy balance....

  5. Estimating Nitrogen Loss across Varying Flow Regimes in a Southeastern Floodplain Using a Multidimensional Ecohydraulic Model

    Science.gov (United States)

    Jones, C.; Scott, D.; Noe, G. B.; Harvey, J. W.

    2011-12-01

    Excess nitrogen (N) flux from the landscape to riverine systems has led to the degradation of many downstream water bodies. Hypoxic zones in both the Gulf of Mexico and Chesapeake Bay can be attributed to the increase in anthropogenic N sources during the last century. Typically, the majority of N flux occurs during flood events. Floodplains act as buffers during these periods of inundation, providing critical ecosystem services such as flood peak attenuation, depositional zones for the removal of sediments and contaminants, and biological hotspots for nutrient transformation. Specifically, regions of overbank inundation and backwater promote steep redox gradients at the sediment-water interface, leading to N removal through denitrification. In many Southeastern floodplains, it appears that this process is limited by the amount of N transported into hydraulically connected regions, making the duration of the hydroperiod (i.e. residence time) the driving force behind N removal. Therefore, in the face of a changing climate, it is imperative that we explore the relationships between changes in flow regime and nutrient retention/removal in our floodplains. In this study, these processes are examined within a Southeastern floodplain using a dynamically linked 1D-2D hydrodynamic model. A 12 km reach of the Tangipahoa River, located in Southeastern Louisiana, was selected for this study. Channel and floodplain bathymetry was developed using a combination of surveyed data and high resolution LIDAR while the boundary conditions were established using stream gauges at the inlet/outlet of the reach. Floodplain stage was recorded at multiple locations and was used to validate model results. Nitrogen removal/retention was modeled using the simplified assumption of a first order decay mechanism. Results from this model were used to correlate changes in flow regime (i.e. flood frequency and duration) to nitrogen removal.

  6. Realizing stock market crashes: stochastic cusp catastrophe model of returns under time-varying volatility

    Czech Academy of Sciences Publication Activity Database

    Baruník, Jozef; Kukačka, Jiří

    2015-01-01

    Roč. 15, č. 6 (2015), s. 959-973 ISSN 1469-7688 R&D Projects: GA ČR GA402/09/0965; GA ČR GA13-32263S EU Projects: European Commission 612955 - FINMAP Institutional support: RVO:67985556 Keywords : Stochastic cusp catastrophe model * Realized volatility * Bifurcations * Stock market crash Subject RIV: AH - Economics Impact factor: 0.794, year: 2015 http://library.utia.cas.cz/separaty/2014/E/barunik-0434202.pdf

  7. Stabilization strategies of a general nonlinear car-following model with varying reaction-time delay of the drivers.

    Science.gov (United States)

    Li, Shukai; Yang, Lixing; Gao, Ziyou; Li, Keping

    2014-11-01

    In this paper, the stabilization strategies of a general nonlinear car-following model with reaction-time delay of the drivers are investigated. The reaction-time delay of the driver is time varying and bounded. By using the Lyapunov stability theory, the sufficient condition for the existence of the state feedback control strategy for the stability of the car-following model is given in the form of linear matrix inequality, under which the traffic jam can be well suppressed with respect to the varying reaction-time delay. Moreover, by considering the external disturbance for the running cars, the robust state feedback control strategy is designed, which ensures robust stability and a smaller prescribed H∞ disturbance attenuation level for the traffic flow. Numerical examples are given to illustrate the effectiveness of the proposed methods. Copyright © 2014 ISA. Published by Elsevier Ltd. All rights reserved.

  8. FE Modelling of the Seismic Behavior of Wide Beam-Column Joints Strengthened with CFRP Systems

    Directory of Open Access Journals (Sweden)

    Giuseppe Santarsiero

    2018-02-01

    Full Text Available A large share of reinforced concrete (RC framed buildings is provided with wide beams being a type of beam allowing greater freedom in the architectural arrangement of interiors, beyond further advantage due to fewer formworks needed during the construction. Nevertheless, little attention has been devoted to the seismic vulnerability of this kind of framed RC buildings as well as to the study of strengthening systems purposely developed for wide beams and wide beam-column connections. Under these premises, this paper proposes simple strengthening solutions made by Fibre Reinforced Polymers (FRP systems able to effectively improve seismic capacity through feasible arrangement suitable in case a wide beam is present. On the basis of wide beam-column joints previously tested without strengthening system, detailed nonlinear finite element models were calibrated. Then, an FRP strengthening intervention based on a brand new arrangement was modeled in order to perform additional simulations under seismic actions. This way, the effectiveness of the strengthening intervention was assessed finding out that significant strength and ductility increments were achieved with a relatively simple and cheap strengthening arrangement. Additional research would be desirable in the form of experimental tests on the simulated wide beam-column joints.

  9. On the Use of Maps and Models in Conservation and Resource Management (Warning: Results May Vary

    Directory of Open Access Journals (Sweden)

    Vincent Lecours

    2017-09-01

    Full Text Available Conservation planning and management typically require accurate and spatially explicit data at scales that are relevant for conservation objectives. In marine conservation, these data are often combined with spatial analytical techniques to produce marine habitat maps. While marine habitat mapping is increasingly used to inform conservation efforts, this field is still relatively young and its methods are rapidly evolving. Because conservation efforts do not always specify standards or guidelines for the production of habitat maps, results can vary dramatically. As representations of real environmental characteristics, habitat maps are highly sensitive to how they are produced. In this review paper, I present four concepts that are known to cause variation in spatial representation and prediction of habitats: the methodology used, the quality and scale of the data, and the choice of variables in regards to fitness for use. I then discuss the potential antinomy associated with the use of habitat maps in conservation: while habitat maps have become an invaluable tool to inform and assist decision-making, maps of the same area built using different methods and data may provide dissimilar representations, thus providing different information and possibly leading to different decisions. Exploring the theories and methods that have proved effective in terrestrial conservation and the spatial sciences, and how they can be integrated in marine habitat mapping practices, could help improve maps used to support marine conservation efforts and result in more reliable products to inform conservation decisions. Having a strong, consistent, transparent, repeatable, and science-based protocol for data collection and mapping is essential for effectively supporting decision-makers in developing conservation and management plans. The development of user-friendly tools to assist in the application of such protocol is crucial to a widespread improvement in

  10. Interictal spike frequency varies with ovarian cycle stage in a rat model of epilepsy.

    Science.gov (United States)

    D'Amour, James; Magagna-Poveda, Alejandra; Moretto, Jillian; Friedman, Daniel; LaFrancois, John J; Pearce, Patrice; Fenton, Andre A; MacLusky, Neil J; Scharfman, Helen E

    2015-07-01

    In catamenial epilepsy, seizures exhibit a cyclic pattern that parallels the menstrual cycle. Many studies suggest that catamenial seizures are caused by fluctuations in gonadal hormones during the menstrual cycle, but this has been difficult to study in rodent models of epilepsy because the ovarian cycle in rodents, called the estrous cycle, is disrupted by severe seizures. Thus, when epilepsy is severe, estrous cycles become irregular or stop. Therefore, we modified kainic acid (KA)- and pilocarpine-induced status epilepticus (SE) models of epilepsy so that seizures were rare for the first months after SE, and conducted video-EEG during this time. The results showed that interictal spikes (IIS) occurred intermittently. All rats with regular 4-day estrous cycles had IIS that waxed and waned with the estrous cycle. The association between the estrous cycle and IIS was strong: if the estrous cycles became irregular transiently, IIS frequency also became irregular, and when the estrous cycle resumed its 4-day pattern, IIS frequency did also. Furthermore, when rats were ovariectomized, or males were recorded, IIS frequency did not show a 4-day pattern. Systemic administration of an estrogen receptor antagonist stopped the estrous cycle transiently, accompanied by transient irregularity of the IIS pattern. Eventually all animals developed severe, frequent seizures and at that time both the estrous cycle and the IIS became irregular. We conclude that the estrous cycle entrains IIS in the modified KA and pilocarpine SE models of epilepsy. The data suggest that the ovarian cycle influences more aspects of epilepsy than seizure susceptibility. Copyright © 2015 Elsevier Inc. All rights reserved.

  11. Performance Optimizing Multi-Objective Adaptive Control with Time-Varying Model Reference Modification

    Science.gov (United States)

    Nguyen, Nhan T.; Hashemi, Kelley E.; Yucelen, Tansel; Arabi, Ehsan

    2017-01-01

    This paper presents a new adaptive control approach that involves a performance optimization objective. The problem is cast as a multi-objective optimal control. The control synthesis involves the design of a performance optimizing controller from a subset of control inputs. The effect of the performance optimizing controller is to introduce an uncertainty into the system that can degrade tracking of the reference model. An adaptive controller from the remaining control inputs is designed to reduce the effect of the uncertainty while maintaining a notion of performance optimization in the adaptive control system.

  12. Models of quality-adjusted life years when health varies over time

    DEFF Research Database (Denmark)

    Hansen, Kristian Schultz; Østerdal, Lars Peter Raahave

    2006-01-01

    time tradeoff (TTO) and standard gamble (SG) scores. We investigate deterministic and probabilistic models and consider five different families of discounting functions in all. The second part of the paper discusses four issues recurrently debated in the literature. This discussion includes questioning...... the SG method as the gold standard for estimation of the health state index, reexamining the role of the constantproportional tradeoff condition, revisiting the problem of double discounting of QALYs, and suggesting that it is not a matter of choosing between TTO and SG procedures as the combination...

  13. Models of Quality-Adjusted Life Years when Health varies over Time: Survey and Analysis

    DEFF Research Database (Denmark)

    Hansen, Kristian Schultz; Østerdal, Lars Peter

    2006-01-01

    time trade-off (TTO) and standard gamble (SG) scores. We investigate deterministic and probabilistic models and consider five different families of discounting functions in all. This discussion includes questioning the SG method as the gold standard of the health state index, re-examining the role...... of the constant-proportional trade-off condition, revisiting the problem of double discounting of QALYs, and suggesting that it is not a matter of choosing between TTO and SG procedures as the combination of these two can be used to disentangle risk aversion from discounting. We find that caution must be taken...

  14. Modelling antecedents of blood donation motivation among non-donors of varying age and education.

    Science.gov (United States)

    Lemmens, K P H; Abraham, C; Ruiter, R A C; Veldhuizen, I J T; Dehing, C J G; Bos, A E R; Schaalma, H P

    2009-02-01

    Understanding blood donation motivation among non-donors is prerequisite to effective recruitment. Two studies explored the psychological antecedents of blood donation motivation and the generalisability of a model of donation motivation across groups differing in age and educational level. An older well-educated population and a younger less well-educated population were sampled. The studies assessed the role of altruism, fear of blood/needles and donation-specific cognitions including attitudes and normative beliefs derived from an extended theory of planned behaviour (TPB). Across both samples, results showed that affective attitude, subjective norm, descriptive norm, and moral norm were the most important correlates of blood donation intentions. Self-efficacy was more important among the younger less well-educated group. Altruism was related to donation motivation but only indirectly through moral norm. Similarly, fear of blood/needles only had an indirect effect on motivation through affective attitude and self-efficacy. Additional analyses with the combined data set found no age or education moderation effects, suggesting that this core model of donation-specific cognitions can be used to inform future practical interventions recruiting new blood donors in the general population.

  15. Modelling optical scattering artefacts for varying pathlength in a gel dosimeter phantom

    Energy Technology Data Exchange (ETDEWEB)

    Bosi, Stephen G [Department of Radiation Oncology, Prince of Wales Hospital, Randwick, NSW 2031 (Australia); Brown, Saxby; Sarabipour, Sarvenaz; Baldock, Clive [Institute of Medical Physics, School of Physics, University of Sydney, NSW 2006 (Australia); De Deene, Yves [Division of Radiotherapy, University Hospital of Ghent, de Pintelaan 185, 9000 Ghent (Belgium)], E-mail: s.bosi@physics.usyd.edu.au

    2009-01-21

    A gelatin phantom containing an optically scattering funnel-shaped region of elevated optical density (OD) was used to examine light-scattering-induced artefacts in a cone-beam optical CT scanner used for gel dosimetry. To simulate polymer gel dosimeters, the opacity was introduced by adding a colloidal scatterer to the gelatin. Scatter results in an underestimate of OD (hence dose). In line profiles of OD taken from 3D reconstructions of the funnel, those profiles with a long pathlength through high OD regions exhibited a 'dishing' (or 'cupping') artefact, while those of short pathlength exhibited the opposite effect-'doming'. These phenomena are accounted for by a model that includes the effect of stray, scattered light.

  16. Diffuse radiation models and monthly-average, daily, diffuse data for a wide latitude range

    International Nuclear Information System (INIS)

    Gopinathan, K.K.; Soler, A.

    1995-01-01

    Several years of measured data on global and diffuse radiation and sunshine duration for 40 widely spread locations in the latitude range 36° S to 60° N are used to develop and test models for estimating monthly-mean, daily, diffuse radiation on horizontal surfaces. Applicability of the clearness-index (K) and sunshine fraction (SSO) models for diffuse estimation and the effect of combining several variables into a single multilinear equation are tested. Correlations connecting the diffuse to global fraction (HdH) with K and SSO predict Hd values more accurately than their separate use. Among clearness-index and sunshine-fraction models, SSO models are found to have better accuracy if correlations are developed for wide latitude ranges. By including a term for declinations in the correlation, the accuracy of the estimated data can be marginally improved. The addition of latitude to the equation does not help to improve the accuracy further. (author)

  17. GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes

    Directory of Open Access Journals (Sweden)

    Nakayama Yoichi

    2006-03-01

    Full Text Available Abstract Background Successful realization of a "systems biology" approach to analyzing cells is a grand challenge for our understanding of life. However, current modeling approaches to cell simulation are labor-intensive, manual affairs, and therefore constitute a major bottleneck in the evolution of computational cell biology. Results We developed the Genome-based Modeling (GEM System for the purpose of automatically prototyping simulation models of cell-wide metabolic pathways from genome sequences and other public biological information. Models generated by the GEM System include an entire Escherichia coli metabolism model comprising 968 reactions of 1195 metabolites, achieving 100% coverage when compared with the KEGG database, 92.38% with the EcoCyc database, and 95.06% with iJR904 genome-scale model. Conclusion The GEM System prototypes qualitative models to reduce the labor-intensive tasks required for systems biology research. Models of over 90 bacterial genomes are available at our web site.

  18. A New Extension of the Binomial Error Model for Responses to Items of Varying Difficulty in Educational Testing and Attitude Surveys.

    Directory of Open Access Journals (Sweden)

    James A Wiley

    Full Text Available We put forward a new item response model which is an extension of the binomial error model first introduced by Keats and Lord. Like the binomial error model, the basic latent variable can be interpreted as a probability of responding in a certain way to an arbitrarily specified item. For a set of dichotomous items, this model gives predictions that are similar to other single parameter IRT models (such as the Rasch model but has certain advantages in more complex cases. The first is that in specifying a flexible two-parameter Beta distribution for the latent variable, it is easy to formulate models for randomized experiments in which there is no reason to believe that either the latent variable or its distribution vary over randomly composed experimental groups. Second, the elementary response function is such that extensions to more complex cases (e.g., polychotomous responses, unfolding scales are straightforward. Third, the probability metric of the latent trait allows tractable extensions to cover a wide variety of stochastic response processes.

  19. Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment.

    NARCIS (Netherlands)

    Kufareva, I.; Rueda, M.; Katritch, V.; Stevens, R.C.; Abagyan, R.; Vroling, B.; Sanders, M.P.A.

    2011-01-01

    The community-wide GPCR Dock assessment is conducted to evaluate the status of molecular modeling and ligand docking for human G protein-coupled receptors. The present round of the assessment was based on the recent structures of dopamine D3 and CXCR4 chemokine receptors bound to small molecule

  20. Status of GPCR Modeling and Docking as Reflected by Community-wide GPCR Dock 2010 Assessment

    NARCIS (Netherlands)

    Kufareva, I; Rueda, M; Katritch, V; Roumen, L.; de Esch, I.J.P.; Leurs, R.; de Graaf, C.; Stevens, R.C.; Abagyan, R

    2011-01-01

    The community-wide GPCR Dock assessment is conducted to evaluate the status of molecular modeling and ligand docking for human G protein-coupled receptors. The present round of the assessment was based on the recent structures of dopamine D3 and CXCR4 chemokine receptors bound to small molecule

  1. Modelling plastic deformation of metals over a wide range of strain rates using irreversible thermodynamics

    NARCIS (Netherlands)

    Huang, M.; Rivera-Diaz-del-Castillo, P.E.J.; Bouaziz, O.; Van der Zwaag, S.

    2009-01-01

    Based on the theory of irreversible thermodynamics, the present work proposes a dislocation-based model to describe the plastic deformation of FCC metals over wide ranges of strain rates. The stress-strain behaviour and the evolution of the average dislocation density are derived. It is found that

  2. Modelling land change: the issue of use and cover in wide-scale applications

    NARCIS (Netherlands)

    Bakker, M.M.; Veldkamp, A.

    2008-01-01

    In this article, the underlying causes for the apparent mismatch between land cover and land use in the context of wide-scale land change modelling are explored. A land use-land cover (LU/LC) ratio is proposed as a relevant landscape characteristic. The one-to-one ratio between land use and land

  3. Lithium-ion battery dynamic model for wide range of operating conditions

    DEFF Research Database (Denmark)

    Stroe, Ana-Irina; Stroe, Daniel-Ioan; Swierczynski, Maciej Jozef

    2017-01-01

    characterization tests performed for a wide range of operating conditions (temperature, load current and state-of-charge) on a commercial available 13Ah high-power lithium titanate oxide battery cell. The obtained results were used to parametrize the proposed dynamic model of the battery cell. To assess...

  4. Channel responses to varying sediment input: A flume experiment modeled after Redwood Creek, California

    Science.gov (United States)

    Madej, M.A.; Sutherland, D.G.; Lisle, T.E.; Pryor, B.

    2009-01-01

    At the reach scale, a channel adjusts to sediment supply and flow through mutual interactions among channel form, bed particle size, and flow dynamics that govern river bed mobility. Sediment can impair the beneficial uses of a river, but the timescales for studying recovery following high sediment loading in the field setting make flume experiments appealing. We use a flume experiment, coupled with field measurements in a gravel-bed river, to explore sediment transport, storage, and mobility relations under various sediment supply conditions. Our flume experiment modeled adjustments of channel morphology, slope, and armoring in a gravel-bed channel. Under moderate sediment increases, channel bed elevation increased and sediment output increased, but channel planform remained similar to pre-feed conditions. During the following degradational cycle, most of the excess sediment was evacuated from the flume and the bed became armored. Under high sediment feed, channel bed elevation increased, the bed became smoother, mid-channel bars and bedload sheets formed, and water surface slope increased. Concurrently, output increased and became more poorly sorted. During the last degradational cycle, the channel became armored and channel incision ceased before all excess sediment was removed. Selective transport of finer material was evident throughout the aggradational cycles and became more pronounced during degradational cycles as the bed became armored. Our flume results of changes in bed elevation, sediment storage, channel morphology, and bed texture parallel those from field surveys of Redwood Creek, northern California, which has exhibited channel bed degradation for 30??years following a large aggradation event in the 1970s. The flume experiment suggested that channel recovery in terms of reestablishing a specific morphology may not occur, but the channel may return to a state of balancing sediment supply and transport capacity.

  5. Physics of the Jagla model as the liquid-liquid coexistence line slope varies.

    Science.gov (United States)

    Luo, Jiayuan; Xu, Limei; Angell, C Austen; Stanley, H Eugene; Buldyrev, Sergey V

    2015-06-14

    The slope of the coexistence line of the liquid-liquid phase transition can be positive, negative, or zero. All three possibilities have been found in Monte-Carlo simulations of a modified spherically symmetric two-scale Jagla model. Since the liquid-liquid critical point frequently lies in a region of the phase diagram that is difficult to access experimentally, it is of great interest to study critical phenomena in the supercritical region. We therefore study the properties of the Widom line, defined in the one-phase region above the critical point as an extension of the coexistence line near which the loci of various response functions extrema asymptotically converge with each other. This phenomenon is predicted by the scaling theory according to which all response functions can be expressed asymptotically in the vicinity of a critical point as functions of the diverging correlation length. We find that the method of identifying the Widom line as the loci of heat capacity maxima becomes unfruitful when the slope of the coexistence line approaches zero in the T-P plane. In this case, the specific heat displays no maximum in the one-phase region because, for a horizontal phase coexistence line, according to the Clapeyron equation, the enthalpy difference between the coexisting phases is zero, and thus the critical fluctuations do not contribute to enthalpy fluctuations. The extension of the coexistence line beyond the critical point into the one-phase region must in this case be performed using density fluctuations. Although the line of compressibility maxima bifurcates into a symmetrical pair of lines, it remains well-defined. We also study how the glass transition changes as the slope of the coexistence line in the T-P plane approaches zero. We find that for the case of positive slopes, diffusivity shows a fragile-to-strong transition upon crossing the Widom line, while for horizontal slope, diffusivity shows the behavior typical for fragile liquids.

  6. Effects of a Time-Varying Color-Luminosity Parameter β on the Cosmological Constraints of Modified Gravity Models

    Science.gov (United States)

    Wang, Shuang; Wang, Yong-Zhen; Zhang, Xin

    2014-12-01

    It has been found that, for the Supernova Legacy Survey three-year (SNLS3) data, there is strong evidence for the redshift-evolution of color-luminosity parameter β. In previous studies, only dark energy (DE) models are used to explore the effects of a time-varying β on parameter estimation. In this paper, we extend the discussions to the case of modified gravity (MG), by considering Dvali—Gabadadze—Porrati (DGP) model, power-law type f(T) model and exponential type f(T) model. In addition to the SNLS3 data, we also use the latest Planck distance priors data, the galaxy clustering (GC) data extracted from Sloan Digital Sky Survey (SDSS) data release 7 (DR7) and Baryon Oscillation Spectroscopic Survey (BOSS), as well as the direct measurement of Hubble constant H0 from the Hubble Space Telescope (HST) observation. We find that, for both cases of using the supernova (SN) data alone and using the combination of all data, adding a parameter of β can reduce χ2 by ~ 36 for all the MG models, showing that a constant β is ruled out at 6σ confidence level (CL). Moreover, we find that a time-varying β always yields a larger fractional matter density Ωm0 and a smaller reduced Hubble constant h; in addition, it significantly changes the shapes of 1σ and 2σ confidence regions of various MG models, and thus corrects systematic bias for the parameter estimation. These conclusions are consistent with the results of DE models, showing that β's evolution is completely independent of the cosmological models in the background. Therefore, our work highlights the importance of considering the evolution of β in the cosmology-fits.

  7. An ASM/ADM model interface for dynamic plant-wide simulation.

    Science.gov (United States)

    Nopens, Ingmar; Batstone, Damien J; Copp, John B; Jeppsson, Ulf; Volcke, Eveline; Alex, Jens; Vanrolleghem, Peter A

    2009-04-01

    Mathematical modelling has proven to be very useful in process design, operation and optimisation. A recent trend in WWTP modelling is to include the different subunits in so-called plant-wide models rather than focusing on parts of the entire process. One example of a typical plant-wide model is the coupling of an upstream activated sludge plant (including primary settler, and secondary clarifier) to an anaerobic digester for sludge digestion. One of the key challenges when coupling these processes has been the definition of an interface between the well accepted activated sludge model (ASM1) and anaerobic digestion model (ADM1). Current characterisation and interface models have key limitations, the most critical of which is the over-use of X(c) (or lumped complex) variable as a main input to the ADM1. Over-use of X(c) does not allow for variation of degradability, carbon oxidation state or nitrogen content. In addition, achieving a target influent pH through the proper definition of the ionic system can be difficult. In this paper, we define an interface and characterisation model that maps degradable components directly to carbohydrates, proteins and lipids (and their soluble analogues), as well as organic acids, rather than using X(c). While this interface has been designed for use with the Benchmark Simulation Model No. 2 (BSM2), it is widely applicable to ADM1 input characterisation in general. We have demonstrated the model both hypothetically (BSM2), and practically on a full-scale anaerobic digester treating sewage sludge.

  8. Advancing the understanding of craving during smoking cessation attempts: a demonstration of the time-varying effect model.

    Science.gov (United States)

    Lanza, Stephanie T; Vasilenko, Sara A; Liu, Xiaoyu; Li, Runze; Piper, Megan E

    2014-05-01

    Advancing the understanding of smoking cessation requires a complex and nuanced understanding of behavior change. To this end, ecological momentary assessments (EMA) are now being collected extensively. The time-varying effect model (TVEM) is a statistical technique ideally suited to model processes that unfold as behavior and nicotine dependence change. Coefficients are expressed dynamically over time and are represented as smooth functions of time. The TVEM approach is demonstrated using data from a smoking-cessation trial. Time-varying effects of baseline nicotine dependence (a time-invariant covariate) and negative affect (a time-varying covariate) on urge to smoke during a quit attempt were estimated for monotherapy, combination therapy, and placebo groups. SAS syntax for conducting TVEM is provided so that readers can adapt it for their research. During the first 2 days after quitting, the association between negative affect and craving was significantly stronger among individuals in the placebo group, suggesting an early positive impact of treatment. For the monotherapy and combination therapy groups, during the second week of the quit attempt, baseline dependence was less strongly related to craving compared with the placebo group, indicating a different positive impact of treatments later in the quit attempt. The results reveal information about the underlying dynamics that unfold during a quit attempt and how monotherapy and combination therapy impact those processes. This suggests possible mechanisms to target in an intervention and indicates timepoints that hold the greatest promise for effective treatment. TVEM is a straightforward approach to examining time-varying processes embedded in EMA.

  9. Development of Industry-Wide IS Integration Model in the Agri-Industry

    DEFF Research Database (Denmark)

    Hedman, Jonas; Henningsson, Stefan

    2013-01-01

    his paper presents a model explaining industrywide information systems (IS) integration in the agri-industry.Using a theoretical frame of value confi guration analysis and IS integration extent we study 15 organizations. We find that product sensitivity, continuous production, value chain captains...... sensitivity and continuous production process led to higher levels of integration......., and value creation logic explain the industry-wide IS integration. Incompatible value creation logic among stakeholders and the lack of presence of “value chain captains” – powerful actors dominating the entire industry - has and negative impact on industry-wide integration. On the other hand, product...

  10. Multiagent Model for Wide-Area Disaster-Evacuation Simulations with Local Factors Considered

    Science.gov (United States)

    Muraki, Yuji; Kanoh, Hitoshi

    In this paper, we propose a multiagent model for wide-area disaster-evacuation simulations with local factorsconsidered. Conventional multiagent models for evacuation simulations neither allow general-purpose computers to executewide-area simulations nor allow the object area to be changed easily. If these problems are solved, however, these simulations can be useful for local governments to make disaster damage prevention plan. In the proposed model, each roadis expressed by a series of cells. A computational amount relevant to interaction among agents is reduced by describing themodel for agents to be affected by other agents through the state of each cell. This makes possible wide area simulations. Using the data of a digital map database that is widely used for car navigation systems enables the simulations to beperformed for any region in Japan. Local factors are reflected in simulations by setting some parameters for evacuees, anevacuation environment, and disaster damage prevention plan of the object area. As an evaluation experiment, wesimulated the situations of Kobe city on the date of the Great Hanshin-Awaji Earthquake. Simulations results about thepercentage of evacuees who arrived at refuges were in good agreement with the actual data when parameters forevacuation-start timing were adjusted. We also simulated the current situations of two cities, Kobe and Tsukuba, and confirmed that this model was successfully applied to the two cities. From these evaluation experiments, we believe thatthis model can be applied to various areas and will perform further experiments in the future.

  11. GW-SEM: A Statistical Package to Conduct Genome-Wide Structural Equation Modeling.

    Science.gov (United States)

    Verhulst, Brad; Maes, Hermine H; Neale, Michael C

    2017-05-01

    Improving the accuracy of phenotyping through the use of advanced psychometric tools will increase the power to find significant associations with genetic variants and expand the range of possible hypotheses that can be tested on a genome-wide scale. Multivariate methods, such as structural equation modeling (SEM), are valuable in the phenotypic analysis of psychiatric and substance use phenotypes, but these methods have not been integrated into standard genome-wide association analyses because fitting a SEM at each single nucleotide polymorphism (SNP) along the genome was hitherto considered to be too computationally demanding. By developing a method that can efficiently fit SEMs, it is possible to expand the set of models that can be tested. This is particularly necessary in psychiatric and behavioral genetics, where the statistical methods are often handicapped by phenotypes with large components of stochastic variance. Due to the enormous amount of data that genome-wide scans produce, the statistical methods used to analyze the data are relatively elementary and do not directly correspond with the rich theoretical development, and lack the potential to test more complex hypotheses about the measurement of, and interaction between, comorbid traits. In this paper, we present a method to test the association of a SNP with multiple phenotypes or a latent construct on a genome-wide basis using a diagonally weighted least squares (DWLS) estimator for four common SEMs: a one-factor model, a one-factor residuals model, a two-factor model, and a latent growth model. We demonstrate that the DWLS parameters and p-values strongly correspond with the more traditional full information maximum likelihood parameters and p-values. We also present the timing of simulations and power analyses and a comparison with and existing multivariate GWAS software package.

  12. Effects of ionic strength and ion pairing on (plant-wide) modelling of anaerobic digestion

    DEFF Research Database (Denmark)

    Solon, Kimberly; Flores Alsina, Xavier; Mbamba, Christian Kazadi

    2015-01-01

    ) and ion pairing on modelling of anaerobic digestion processes in such plant-wide models of wastewater treatment. Using the BSM2 as a case study with a number of model variants and cationic load scenarios, this paper presents the effects of an improved physico-chemical description on model predictions...... and overall plant performance indicators, namely effluent quality index (EQI) and operational cost index (OCI). The acid-base equilibria implemented in the Anaerobic Digestion Model No. 1 (ADM1) are modified to account for non-ideal aqueous-phase chemistry. The model corrects for ionic strength via the Davies....... The paper describes: 1) how the anaerobic digester performance is affected by physico-chemical corrections; 2) the effect on pH and the anaerobic digestion products (CO2, CH4 and H2); and, 3) how these variations are propagated from the sludge treatment to the water line. Results at high ionic strength...

  13. Time-Varying Hydraulic Gradient Model of Paste-Like Tailings in Long-Distance Pipeline Transportation

    Directory of Open Access Journals (Sweden)

    Li Yang

    2017-01-01

    Full Text Available Paste-like tailings slurry (PTLS is always simplified as a Bingham plastic fluid, leading to excessive computational errors in the calculation of the hydraulic gradient. In the case of paste-like tailings in long-distance pipeline transportation, to explore a high-precision and reliable hydraulic gradient formula, the rheological behavior of paste-like tailings slurry was analyzed, a time-varying hydraulic gradient model was constructed, and a series of laboratory shear tests were conducted. The results indicate that the PTLS shows noticeable shear-thinning characteristics in constant shear tests; the calculated hydraulic gradient declined by about 56%, from 4.44 MPa·km−1 to 1.95 MPa·km−1 within 253 s, and remained constant for the next four hours during the pipeline transportation. Comparing with the balance hydraulic gradient obtained in a semi-industrial loop test, the computational errors of those calculated by using the time-varying hydraulic gradient model, Jinchuan formula, and Shanxi formula are 15%, 78%, and 130%, respectively. Therefore, our model is a feasible and high-precision solution for the calculation of the hydraulic gradient of paste-like tailings in long-distance pipeline transportation.

  14. GenoGAM: genome-wide generalized additive models for ChIP-Seq analysis.

    Science.gov (United States)

    Stricker, Georg; Engelhardt, Alexander; Schulz, Daniel; Schmid, Matthias; Tresch, Achim; Gagneur, Julien

    2017-08-01

    Chromatin immunoprecipitation followed by deep sequencing (ChIP-Seq) is a widely used approach to study protein-DNA interactions. Often, the quantities of interest are the differential occupancies relative to controls, between genetic backgrounds, treatments, or combinations thereof. Current methods for differential occupancy of ChIP-Seq data rely however on binning or sliding window techniques, for which the choice of the window and bin sizes are subjective. Here, we present GenoGAM (Genome-wide Generalized Additive Model), which brings the well-established and flexible generalized additive models framework to genomic applications using a data parallelism strategy. We model ChIP-Seq read count frequencies as products of smooth functions along chromosomes. Smoothing parameters are objectively estimated from the data by cross-validation, eliminating ad hoc binning and windowing needed by current approaches. GenoGAM provides base-level and region-level significance testing for full factorial designs. Application to a ChIP-Seq dataset in yeast showed increased sensitivity over existing differential occupancy methods while controlling for type I error rate. By analyzing a set of DNA methylation data and illustrating an extension to a peak caller, we further demonstrate the potential of GenoGAM as a generic statistical modeling tool for genome-wide assays. Software is available from Bioconductor: https://www.bioconductor.org/packages/release/bioc/html/GenoGAM.html . gagneur@in.tum.de. Supplementary information is available at Bioinformatics online.

  15. GOCO05c: A New Combined Gravity Field Model Based on Full Normal Equations and Regionally Varying Weighting

    Science.gov (United States)

    Fecher, T.; Pail, R.; Gruber, T.

    2017-05-01

    GOCO05c is a gravity field model computed as a combined solution of a satellite-only model and a global data set of gravity anomalies. It is resolved up to degree and order 720. It is the first model applying regionally varying weighting. Since this causes strong correlations among all gravity field parameters, the resulting full normal equation system with a size of 2 TB had to be solved rigorously by applying high-performance computing. GOCO05c is the first combined gravity field model independent of EGM2008 that contains GOCE data of the whole mission period. The performance of GOCO05c is externally validated by GNSS-levelling comparisons, orbit tests, and computation of the mean dynamic topography, achieving at least the quality of existing high-resolution models. Results show that the additional GOCE information is highly beneficial in insufficiently observed areas, and that due to the weighting scheme of individual data the spectral and spatial consistency of the model is significantly improved. Due to usage of fill-in data in specific regions, the model cannot be used for physical interpretations in these regions.

  16. Modeling and classifying human activities from trajectories using a class of space-varying parametric motion fields.

    Science.gov (United States)

    Nascimento, Jacinto C; Marques, Jorge S; Lemos, João M

    2013-05-01

    Many approaches to trajectory analysis, such as clustering or classification, use probabilistic generative models, thus not requiring trajectory alignment/registration. Switched linear dynamical models (e.g., HMMs) have been used in this context, due to their ability to describe different motion regimes. However, these models are not suitable for handling space-dependent dynamics that are more naturally captured by nonlinear models. As is well known, these are more difficult to identify. In this paper, we propose a new way of modeling trajectories, based on a mixture of parametric motion vector fields that depend on a small number of parameters. Switching among these fields follows a probabilistic mechanism, characterized by a field of stochastic matrices. This approach allows representing a wide variety of trajectories and modeling space-dependent behaviors without using global nonlinear dynamical models. Experimental evaluation is conducted in both synthetic and real scenarios. The latter concerning with human trajectory modeling for activity classification, a central task in video surveillance.

  17. Modeling Water Flux at the Base of the Rooting Zone for Soils with Varying Glacial Parent Materials

    Science.gov (United States)

    Naylor, S.; Ellett, K. M.; Ficklin, D. L.; Olyphant, G. A.

    2013-12-01

    Soils of varying glacial parent materials in the Great Lakes Region (USA) are characterized by thin unsaturated zones and widespread use of agricultural pesticides and nutrients that affect shallow groundwater. To better our understanding of the fate and transport of contaminants, improved models of water fluxes through the vadose zones of various hydrogeologic settings are warranted. Furthermore, calibrated unsaturated zone models can be coupled with watershed models, providing a means for predicting the impact of varying climate scenarios on agriculture in the region. To address these issues, a network of monitoring sites was developed in Indiana that provides continuous measurements of precipitation, potential evapotranspiration (PET), soil volumetric water content (VWC), and soil matric potential to parameterize and calibrate models. Flux at the base of the root zone is simulated using two models of varying complexity: 1) the HYDRUS model, which numerically solves the Richards equation, and 2) the soil-water-balance (SWB) model, which assumes vertical flow under a unit gradient with infiltration and evapotranspiration treated as separate, sequential processes. Soil hydraulic parameters are determined based on laboratory data, a pedo-transfer function (ROSETTA), field measurements (Guelph permeameter), and parameter optimization. Groundwater elevation data are available at three of six sites to establish the base of the unsaturated zone model domain. Initial modeling focused on the groundwater recharge season (Nov-Feb) when PET is limited and much of the annual vertical flux occurs. HYDRUS results indicate that base of root zone fluxes at a site underlain by glacial ice-contact parent materials are 48% of recharge season precipitation (VWC RMSE=8.2%), while SWB results indicate that fluxes are 43% (VWC RMSE=3.7%). Due in part to variations in surface boundary conditions, more variable fluxes were obtained for a site underlain by alluvium with the SWB model (68

  18. A pagerank-based preferential attachment model for the evolution of the world wide web

    OpenAIRE

    Giammatteo, P.; Donato, D.; Zlatic', V.; Caldarelli, G.

    2010-01-01

    We propose a model of network growth aimed at mimicking the evolution of the World Wide Web. To this purpose, we take as a key quantity, in the network evolution, the centrality or importance of a vertex as measured by its PageRank. Using a preferential attachment rule and a rewiring procedure based on this quantity, we can reproduce most of the topological properties of the system.

  19. Examining Teacher Outcomes of the School-Wide Positive Behavior Support Model in Norway

    OpenAIRE

    Mari-Anne Sørlie; Terje Ogden; Asgeir Røyrhus Olseth

    2016-01-01

    Research on teacher outcomes of the School-Wide Positive Behavior Support (SWPBS) model has been scarce. The present study adds to the knowledge base by examining the effects of the Norwegian version of SWPBS (N-PALS) on school staffs’ behavior management practices and on their individual and collective efficacy. Questionnaire data were collected from staff and students (Grades 4-7) at four measurement points across fo...

  20. Genome-Wide Expression Profiling of Five Mouse Models Identifies Similarities and Differences with Human Psoriasis

    Science.gov (United States)

    Swindell, William R.; Johnston, Andrew; Carbajal, Steve; Han, Gangwen; Wohn, Christian; Lu, Jun; Xing, Xianying; Nair, Rajan P.; Voorhees, John J.; Elder, James T.; Wang, Xiao-Jing; Sano, Shigetoshi; Prens, Errol P.; DiGiovanni, John; Pittelkow, Mark R.; Ward, Nicole L.; Gudjonsson, Johann E.

    2011-01-01

    Development of a suitable mouse model would facilitate the investigation of pathomechanisms underlying human psoriasis and would also assist in development of therapeutic treatments. However, while many psoriasis mouse models have been proposed, no single model recapitulates all features of the human disease, and standardized validation criteria for psoriasis mouse models have not been widely applied. In this study, whole-genome transcriptional profiling is used to compare gene expression patterns manifested by human psoriatic skin lesions with those that occur in five psoriasis mouse models (K5-Tie2, imiquimod, K14-AREG, K5-Stat3C and K5-TGFbeta1). While the cutaneous gene expression profiles associated with each mouse phenotype exhibited statistically significant similarity to the expression profile of psoriasis in humans, each model displayed distinctive sets of similarities and differences in comparison to human psoriasis. For all five models, correspondence to the human disease was strong with respect to genes involved in epidermal development and keratinization. Immune and inflammation-associated gene expression, in contrast, was more variable between models as compared to the human disease. These findings support the value of all five models as research tools, each with identifiable areas of convergence to and divergence from the human disease. Additionally, the approach used in this paper provides an objective and quantitative method for evaluation of proposed mouse models of psoriasis, which can be strategically applied in future studies to score strengths of mouse phenotypes relative to specific aspects of human psoriasis. PMID:21483750

  1. Gaussian covariance graph models accounting for correlated marker effects in genome-wide prediction.

    Science.gov (United States)

    Martínez, C A; Khare, K; Rahman, S; Elzo, M A

    2017-10-01

    Several statistical models used in genome-wide prediction assume uncorrelated marker allele substitution effects, but it is known that these effects may be correlated. In statistics, graphical models have been identified as a useful tool for covariance estimation in high-dimensional problems and it is an area that has recently experienced a great expansion. In Gaussian covariance graph models (GCovGM), the joint distribution of a set of random variables is assumed to be Gaussian and the pattern of zeros of the covariance matrix is encoded in terms of an undirected graph G. In this study, methods adapting the theory of GCovGM to genome-wide prediction were developed (Bayes GCov, Bayes GCov-KR and Bayes GCov-H). In simulated data sets, improvements in correlation between phenotypes and predicted breeding values and accuracies of predicted breeding values were found. Our models account for correlation of marker effects and permit to accommodate general structures as opposed to models proposed in previous studies, which consider spatial correlation only. In addition, they allow incorporation of biological information in the prediction process through its use when constructing graph G, and their extension to the multi-allelic loci case is straightforward. © 2017 Blackwell Verlag GmbH.

  2. A simulation of cross-country skiing on varying terrain by using a mathematical power balance model

    Directory of Open Access Journals (Sweden)

    Moxnes JF

    2013-05-01

    Full Text Available John F Moxnes,1 Øyvind Sandbakk,2 Kjell Hausken31Department for Protection, Norwegian Defence Research Establishment, Kjeller, Norway; 2Human Movement Science Program, Norwegian University of Science and Technology, Trondheim, Norway; 3Faculty of Social Sciences, University of Stavanger, Stavanger, NorwayAbstract: The current study simulated cross-country skiing on varying terrain by using a power balance model. By applying the hypothetical inductive deductive method, we compared the simulated position along the track with actual skiing on snow, and calculated the theoretical effect of friction and air drag on skiing performance. As input values in the model, air drag and friction were estimated from the literature, whereas the model included relationships between heart rate, metabolic rate, and work rate based on the treadmill roller-ski testing of an elite cross-country skier. We verified this procedure by testing four models of metabolic rate against experimental data on the treadmill. The experimental data corresponded well with the simulations, with the best fit when work rate was increased on uphill and decreased on downhill terrain. The simulations predicted that skiing time increases by 3%–4% when either friction or air drag increases by 10%. In conclusion, the power balance model was found to be a useful tool for predicting how various factors influence racing performance in cross-country skiing.Keywords: skiing, power balance, metabolic rate, work rate, air drag, friction coefficient

  3. A benchmark simulation model to describe plant-wide phosphorus transformations in WWTPs

    DEFF Research Database (Denmark)

    Flores-Alsina, Xavier; Ikumi, D.; Kazadi-Mbamba, C.

    of monitoring and plant-wide control strategies, respectively. In addition, researchers working within the IWA Task Group on Benchmarking of Control Strategies for Wastewater Treatment Plants developed other BSM related spin-off products, such as the dynamic influent generator, sensor/actuators/fault models...... to BSM2-P, for example: 1) new/upgraded mathematical models; 2) model integration; 3) new influent characterization; 4) new plant layout; and, 5) new/extended evaluation criteria. The paper covers and analyses all these aspects at a reasonable level of detail, identifies the main bottlenecks that need......) pursue biological/chemical phosphorus removal. However, realistic descriptions of combined C, N and P removal, adds a major, but unavoidable degree of complexity in wastewater treatment process models. This paper identifies and discusses important issues that need to be addressed to upgrade the BSM2...

  4. Network-Wide Traffic Anomaly Detection and Localization Based on Robust Multivariate Probabilistic Calibration Model

    Directory of Open Access Journals (Sweden)

    Yuchong Li

    2015-01-01

    Full Text Available Network anomaly detection and localization are of great significance to network security. Compared with the traditional methods of host computer, single link and single path, the network-wide anomaly detection approaches have distinctive advantages with respect to detection precision and range. However, when facing the actual problems of noise interference or data loss, the network-wide anomaly detection approaches also suffer significant performance reduction or may even become unavailable. Besides, researches on anomaly localization are rare. In order to solve the mentioned problems, this paper presents a robust multivariate probabilistic calibration model for network-wide anomaly detection and localization. It applies the latent variable probability theory with multivariate t-distribution to establish the normal traffic model. Not only does the algorithm implement network anomaly detection by judging whether the sample’s Mahalanobis distance exceeds the threshold, but also it locates anomalies by contribution analysis. Both theoretical analysis and experimental results demonstrate its robustness and wider use. The algorithm is applicable when dealing with both data integrity and loss. It also has a stronger resistance over noise interference and lower sensitivity to the change of parameters, all of which indicate its performance stability.

  5. Genome-wide association study of handedness excludes simple genetic models

    Science.gov (United States)

    Armour, J AL; Davison, A; McManus, I C

    2014-01-01

    Handedness is a human behavioural phenotype that appears to be congenital, and is often assumed to be inherited, but for which the developmental origin and underlying causation(s) have been elusive. Models of the genetic basis of variation in handedness have been proposed that fit different features of the observed resemblance between relatives, but none has been decisively tested or a corresponding causative locus identified. In this study, we applied data from well-characterised individuals studied at the London Twin Research Unit. Analysis of genome-wide SNP data from 3940 twins failed to identify any locus associated with handedness at a genome-wide level of significance. The most straightforward interpretation of our analyses is that they exclude the simplest formulations of the ‘right-shift' model of Annett and the ‘dextral/chance' model of McManus, although more complex modifications of those models are still compatible with our observations. For polygenic effects, our study is inadequately powered to reliably detect alleles with effect sizes corresponding to an odds ratio of 1.2, but should have good power to detect effects at an odds ratio of 2 or more. PMID:24065183

  6. Software engineering the mixed model for genome-wide association studies on large samples.

    Science.gov (United States)

    Zhang, Zhiwu; Buckler, Edward S; Casstevens, Terry M; Bradbury, Peter J

    2009-11-01

    Mixed models improve the ability to detect phenotype-genotype associations in the presence of population stratification and multiple levels of relatedness in genome-wide association studies (GWAS), but for large data sets the resource consumption becomes impractical. At the same time, the sample size and number of markers used for GWAS is increasing dramatically, resulting in greater statistical power to detect those associations. The use of mixed models with increasingly large data sets depends on the availability of software for analyzing those models. While multiple software packages implement the mixed model method, no single package provides the best combination of fast computation, ability to handle large samples, flexible modeling and ease of use. Key elements of association analysis with mixed models are reviewed, including modeling phenotype-genotype associations using mixed models, population stratification, kinship and its estimation, variance component estimation, use of best linear unbiased predictors or residuals in place of raw phenotype, improving efficiency and software-user interaction. The available software packages are evaluated, and suggestions made for future software development.

  7. Effect of Varying the Angle of Attack of the Scales on a Biomimetic Shark Skin Model on Embedded Vortex Formation

    Science.gov (United States)

    Wheelus, Jennifer; Lang, Amy; Bradshaw, Michael; Jones, Emily; Afroz, Farhana; Motta, Philip; Habegger, Maria

    2012-11-01

    The skin of fast-swimming sharks is proposed to have mechanisms to reduce drag and delay flow separation. The skin of fast-swimming and agile sharks is covered with small teeth-like denticles on the order of 0.2 mm. The shortfin mako is one of the fastest and most agile ocean predators creating the need to minimize its pressure drag by controlling flow separation. Biological studies of the shortfin mako skin have shown the passive bristling angle of their denticles to exceed 50 degrees in areas on the flank corresponding to the locations likely to experience separation first. It has been shown that for an angle of attack of 90 degrees, vortices form within these cavities and impose a partial slip condition at the surface of the cavity. This experiment focuses on smaller angles of attack for denticle bristling, closer to the range thought to be achieved on real shark skin. A 3-D bristled shark skin model with varying angle of attack, embedded below a boundary layer, was used to study the formation of cavity vortices through fluorescent dye visualization and Digital Particle Image Velocimetry (DPIV). The effect of varying angle of attack on vortex formation will be discussed.

  8. Using Time-Varying Evidence to Test Models of Decision Dynamics: Bounded Diffusion vs. the Leaky Competing Accumulator Model.

    Science.gov (United States)

    Tsetsos, Konstantinos; Gao, Juan; McClelland, James L; Usher, Marius

    2012-01-01

    When people make decisions, do they give equal weight to evidence arriving at different times? A recent study (Kiani et al., 2008) using brief motion pulses (superimposed on a random moving dot display) reported a primacy effect: pulses presented early in a motion observation period had a stronger impact than pulses presented later. This observation was interpreted as supporting the bounded diffusion (BD) model and ruling out models in which evidence accumulation is subject to leakage or decay of early-arriving information. We use motion pulses and other manipulations of the timing of the perceptual evidence in new experiments and simulations that support the leaky competing accumulator (LCA) model as an alternative to the BD model. While the LCA does include leakage, we show that it can exhibit primacy as a result of competition between alternatives (implemented via mutual inhibition), when the inhibition is strong relative to the leak. Our experiments replicate the primacy effect when participants must be prepared to respond quickly at the end of a motion observation period. With less time pressure, however, the primacy effect is much weaker. For 2 (out of 10) participants, a primacy bias observed in trials where the motion observation period is short becomes weaker or reverses (becoming a recency effect) as the observation period lengthens. Our simulation studies show that primacy is equally consistent with the LCA or with BD. The transition from primacy-to-recency can also be captured by the LCA but not by BD. Individual differences and relations between the LCA and other models are discussed.

  9. Development of a State-Wide 3-D Seismic Tomography Velocity Model for California

    Science.gov (United States)

    Thurber, C. H.; Lin, G.; Zhang, H.; Hauksson, E.; Shearer, P.; Waldhauser, F.; Hardebeck, J.; Brocher, T.

    2007-12-01

    We report on progress towards the development of a state-wide tomographic model of the P-wave velocity for the crust and uppermost mantle of California. The dataset combines first arrival times from earthquakes and quarry blasts recorded on regional network stations and travel times of first arrivals from explosions and airguns recorded on profile receivers and network stations. The principal active-source datasets are Geysers-San Pablo Bay, Imperial Valley, Livermore, W. Mojave, Gilroy-Coyote Lake, Shasta region, Great Valley, Morro Bay, Mono Craters-Long Valley, PACE, S. Sierras, LARSE 1 and 2, Loma Prieta, BASIX, San Francisco Peninsula and Parkfield. Our beta-version model is coarse (uniform 30 km horizontal and variable vertical gridding) but is able to image the principal features in previous separate regional models for northern and southern California, such as the high-velocity subducting Gorda Plate, upper to middle crustal velocity highs beneath the Sierra Nevada and much of the Coast Ranges, the deep low-velocity basins of the Great Valley, Ventura, and Los Angeles, and a high- velocity body in the lower crust underlying the Great Valley. The new state-wide model has improved areal coverage compared to the previous models, and extends to greater depth due to the data at large epicentral distances. We plan a series of steps to improve the model. We are enlarging and calibrating the active-source dataset as we obtain additional picks from investigators and perform quality control analyses on the existing and new picks. We will also be adding data from more quarry blasts, mainly in northern California, following an identification and calibration procedure similar to Lin et al. (2006). Composite event construction (Lin et al., in press) will be carried out for northern California for use in conventional tomography. A major contribution of the state-wide model is the identification of earthquakes yielding arrival times at both the Northern California Seismic

  10. Statistical power of model selection strategies for genome-wide association studies.

    Directory of Open Access Journals (Sweden)

    Zheyang Wu

    2009-07-01

    Full Text Available Genome-wide association studies (GWAS aim to identify genetic variants related to diseases by examining the associations between phenotypes and hundreds of thousands of genotyped markers. Because many genes are potentially involved in common diseases and a large number of markers are analyzed, it is crucial to devise an effective strategy to identify truly associated variants that have individual and/or interactive effects, while controlling false positives at the desired level. Although a number of model selection methods have been proposed in the literature, including marginal search, exhaustive search, and forward search, their relative performance has only been evaluated through limited simulations due to the lack of an analytical approach to calculating the power of these methods. This article develops a novel statistical approach for power calculation, derives accurate formulas for the power of different model selection strategies, and then uses the formulas to evaluate and compare these strategies in genetic model spaces. In contrast to previous studies, our theoretical framework allows for random genotypes, correlations among test statistics, and a false-positive control based on GWAS practice. After the accuracy of our analytical results is validated through simulations, they are utilized to systematically evaluate and compare the performance of these strategies in a wide class of genetic models. For a specific genetic model, our results clearly reveal how different factors, such as effect size, allele frequency, and interaction, jointly affect the statistical power of each strategy. An example is provided for the application of our approach to empirical research. The statistical approach used in our derivations is general and can be employed to address the model selection problems in other random predictor settings. We have developed an R package markerSearchPower to implement our formulas, which can be downloaded from the

  11. Hybrid modeling for dynamic analysis of cable-pulley systems with time-varying length cable and its application

    Science.gov (United States)

    Wang, Jing; Qi, Zhaohui; Wang, Gang

    2017-10-01

    The dynamic analysis of cable-pulley systems is investigated in this paper, where the time-varying length characteristic of the cable as well as the coupling motion between the cable and the pulleys are considered. The dynamic model for cable-pulley systems are presented based on the principle of virtual power. Firstly, the cubic spline interpolation is adopted for modeling the flexible cable elements and the virtual 1powers of tensile strain, inertia and gravity forces on the cable are formulated. Then, the coupled motions between the cable and the movable or fixed pulley are described by the input and output contact points, based on the no-slip assumption and the spatial description. The virtual powers of inertia, gravity and applied forces on the contact segment of the cable, the movable and fixed pulleys are formulated. In particular, the internal node degrees of freedom of spline cable elements are reduced, which results in that only the independent description parameters of the nodes connected to the pulleys are included in the final governing dynamic equations. At last, two cable-pulley lifting mechanisms are considered as demonstrative application examples where the vibration of the lifting process is investigated. The comparison with ADAMS models is given to prove the validity of the proposed method.

  12. Numerical modeling of solute transport in a sand tank physical model under varying hydraulic gradient and hydrological stresses

    Science.gov (United States)

    Atlabachew, Abunu; Shu, Longcang; Wu, Peipeng; Zhang, Yongjie; Xu, Yang

    2018-03-01

    This laboratory study improves the understanding of the impacts of horizontal hydraulic gradient, artificial recharge, and groundwater pumping on solute transport through aquifers. Nine experiments and numerical simulations were carried out using a sand tank. The variable-density groundwater flow and sodium chloride transport were simulated using the three-dimensional numerical model SEAWAT. Numerical modelling results successfully reproduced heads and concentrations observed in the sand tank. A higher horizontal hydraulic gradient enhanced the migration of sodium chloride, particularly in the groundwater flow direction. The application of constant artificial recharge increased the spread of the sodium chloride plume in both the longitudinal and lateral directions. In addition, groundwater pumping accelerated spreading of the sodium chloride plume towards the pumping well. Both higher hydraulic gradient and pumping rate generated oval-shaped plumes in the horizontal plane. However, the artificial recharge process produced stretched plumes. These effects of artificial recharge and groundwater pumping were greater under higher hydraulic gradient. The concentration breakthrough curves indicated that emerging solutions never attained the concentration of the originally injected solution. This is probably because of sorption of sodium chloride onto the silica sand and/or the exchange of sodium chloride between the mobile and immobile liquid domains. The fingering and protruding plume shapes in the numerical models constitute instability zones produced by buoyancy-driven flow. Overall, the results have substantiated the influences of hydraulic gradient, boundary condition, artificial recharge, pumping rate and density differences on solute transport through a homogeneous unconfined aquifer. The implications of these findings are important for managing liquid wastes.

  13. World wide web and virtual reality in developing and using environmental models

    International Nuclear Information System (INIS)

    Guariso, G.

    2001-01-01

    The application of World wide web as an active component of environmental decision support system is still largely unexplored. Environmental problems are distributed in nature, both from the physical and from the social point of view; the Web is thus an ideal tool to share concepts and decisions among multiple interested parties. Also Virtual Reality (VR) that has not find, up to know, a large application in the development and teaching of environmental models. The paper shows some recent applications that highlight the potential of these tools [it

  14. Thermal modeling of wide bandgap semiconductor devices for high frequency power converters

    Science.gov (United States)

    Sharath Sundar Ram, S.; Vijayakumari, A.

    2018-02-01

    The emergence of wide bandgap semiconductors has led to development of new generation semiconductor switches that are highly efficient and scalable. To exploit the advantages of GaNFETs in power converters, in terms of reduction in the size of heat sinks and filters, a thorough understanding of the thermal behavior of the device is essential. This paper aims to establish a thermal model for wideband gap semiconductor GaNFETs commercially available, which will enable power electronic designers to obtain the thermal characteristics of the device more effectively. The model parameters is obtained from the manufacturer’s data sheet by adopting an exponential curve fitting technique and the thermal model is validated using PSPICE simulations. The model was developed based on the parametric equivalence that exists between the thermal and electrical components, such that it responds for transient thermal stresses. A suitable power profile has been generated to evaluate the GaNFET model under different power dissipation scenarios. The results were compared with a Silicon MOSFETs to further highlight the advantages of the GaN devices. The proposed modeling approach can be extended for other GaN devices and can provide a platform for the thermal study and heat sink optimization.

  15. A wide-range model of two-group gross sections in the dynamics code HEXTRAN

    International Nuclear Information System (INIS)

    Kaloinen, E.; Peltonen, J.

    2002-01-01

    In dynamic analyses the thermal hydraulic conditions within the reactor core may have a large variation, which sets a special requirement on the modeling of cross sections. The standard model in the dynamics code HEXTRAN is the same as in the static design code HEXBU-3D/MODS. It is based on a linear and second order fitting of two-group cross sections on fuel and moderator temperature, moderator density and boron density. A new, wide-range model of cross sections developed in Fortum Nuclear Services for HEXBU-3D/MOD6 has been included as an option into HEXTRAN. In this model the nodal cross sections are constructed from seven state variables in a polynomial of more than 40 terms. Coefficients of the polynomial are created by a least squares fitting to the results of a large number of fuel assembly calculations. Depending on the choice of state variables for the spectrum calculations, the new cross section model is capable to cover local conditions from cold zero power to boiling at full power. The 5. dynamic benchmark problem of AER is analyzed with the new option and results are compared to calculations with the standard model of cross sections in HEXTRAN (Authors)

  16. Examining Teacher Outcomes of the School-Wide Positive Behavior Support Model in Norway

    Directory of Open Access Journals (Sweden)

    Mari-Anne Sørlie

    2016-05-01

    Full Text Available Research on teacher outcomes of the School-Wide Positive Behavior Support (SWPBS model has been scarce. The present study adds to the knowledge base by examining the effects of the Norwegian version of SWPBS (N-PALS on school staffs’ behavior management practices and on their individual and collective efficacy. Questionnaire data were collected from staff and students (Grades 4-7 at four measurement points across four successive school years in 28 intervention schools and 20 comparison schools. Using longitudinal multilevel analyses, indications of positive 3-year main effects of the N-PALS model were observed for staff-reported collective efficacy, self-efficacy, and positive behavior support practices. The intervention effects as measured by Cohen’s d ranged from .14 to .91. The effects on student perceptions of teachers’ behavior management strategies were, however, not consistent with the positive staff ratings. Results are discussed in relation to prior research, future research, and study limitations.

  17. School outcomes of a community-wide intervention model aimed at preventing problem behavior.

    Science.gov (United States)

    Kjøbli, John; Sørlie, Mari-Anne

    2008-08-01

    The Early Intervention for Children at Risk for Developing Behavioral Problems (EICR) is a community-wide intervention model preventing and treating problem behavior and promoting social competence in children. The aim of the study was to test whether EICR would result in fewer incidences of problem behavior and improved learning climate in elementary schools in a Norwegian municipality. The municipality was divided in two, each section having equal chance of being assigned to the intervention condition. Participants were principals and school staff. One year after the initiation of EICR, the prevalence of student problem behavior was significantly lower, and student relations were significantly better for schools located in the intervention area than for schools located in the comparison area. The findings support further development, implementation and research on the EICR model.

  18. Towards a benchmark simulation model for plant-wide control strategy performance evaluation of WWTPs

    DEFF Research Database (Denmark)

    Jeppsson, Ulf; Rosen, Christian; Alex, Jens

    2006-01-01

    worldwide, demonstrates the interest in such a tool within the research community In this paper, an extension of the benchmark simulation model no 1 (BSM1) is proposed. This extension aims at facilitating control strategy development and performance evaluation at a plant-wide level and, consequently...... the changes, the evaluation period has been extended to one year. A prolonged evaluation period allows for long-term control strategies to be assessed and enables the use of control handles that cannot be evaluated in a realistic fashion in the one-week BSM1 evaluation period. In the paper, the extended plant......The COST/IWA benchmark simulation model has been available for seven years. Its primary purpose has been to create a platform for control strategy benchmarking of activated sludge processes. The fact that the benchmark has resulted in more than 100 publications, not only in Europe but also...

  19. Validation of a plant-wide phosphorus modelling approach with minerals precipitation in a full-scale WWTP

    DEFF Research Database (Denmark)

    Mbamba, Christian Kazadi; Flores Alsina, Xavier; Batstone, Damien John

    2016-01-01

    The focus of modelling in wastewater treatment is shifting from single unit to plant-wide scale. Plant wide modelling approaches provide opportunities to study the dynamics and interactions of different transformations in water and sludge streams. Towards developing more general and robust simula...

  20. Perspectives of widely scalable exposure models for multi-hazard global risk assessment

    Science.gov (United States)

    Pittore, Massimiliano; Haas, Michael; Wieland, Marc

    2017-04-01

    Less than 5% of earth's surface is urbanized, and currently hosts around 7.5 billion people, with these figures constantly changing as increasingly faster urbanization takes place. A significant percentage of this population, often in economically developing countries, is exposed to different natural hazards which contribute to further raise the bar on the expected economic and social consequences. Global initiatives such as GAR 15 advocate for a wide scale, possibly global perspective on the assessment of risk arising from natural hazards, as a way to increase the risk-awareness of decision-makers and stakeholders, and to better harmonize large-scale prevention and mitigation actions. Realizing, and even more importantly maintaining a widely-scalable exposure model suited for the assessment of different natural risks would allow large-scale quantitative risk and loss assessment in a more efficient and reliable way. Considering its complexity and extent, such a task is undoubtedly a challenging one, spanning across multiple disciplines and operational contexts. On the other hand, with a careful design and an efficient and scalable implementation such endeavour would be well within reach and would contribute to significantly improve our understanding of the mechanisms lying behind what we call natural catastrophes. In this contribution we'll review existing relevant applications, will discuss how to tackle the most critical issues and will outline a road map for the implementation of global-scoped exposure models.

  1. Cellular automaton model in the fundamental diagram approach reproducing the synchronized outflow of wide moving jams

    International Nuclear Information System (INIS)

    Tian, Jun-fang; Yuan, Zhen-zhou; Jia, Bin; Fan, Hong-qiang; Wang, Tao

    2012-01-01

    Velocity effect and critical velocity are incorporated into the average space gap cellular automaton model [J.F. Tian, et al., Phys. A 391 (2012) 3129], which was able to reproduce many spatiotemporal dynamics reported by the three-phase theory except the synchronized outflow of wide moving jams. The physics of traffic breakdown has been explained. Various congested patterns induced by the on-ramp are reproduced. It is shown that the occurrence of synchronized outflow, free outflow of wide moving jams is closely related with drivers time delay in acceleration at the downstream jam front and the critical velocity, respectively. -- Highlights: ► Velocity effect is added into average space gap cellular automaton model. ► The physics of traffic breakdown has been explained. ► The probabilistic nature of traffic breakdown is simulated. ► Various congested patterns induced by the on-ramp are reproduced. ► The occurrence of synchronized outflow of jams depends on drivers time delay.

  2. An Empirical Bayes Mixture Model for Effect Size Distributions in Genome-Wide Association Studies.

    Directory of Open Access Journals (Sweden)

    Wesley K Thompson

    2015-12-01

    Full Text Available Characterizing the distribution of effects from genome-wide genotyping data is crucial for understanding important aspects of the genetic architecture of complex traits, such as number or proportion of non-null loci, average proportion of phenotypic variance explained per non-null effect, power for discovery, and polygenic risk prediction. To this end, previous work has used effect-size models based on various distributions, including the normal and normal mixture distributions, among others. In this paper we propose a scale mixture of two normals model for effect size distributions of genome-wide association study (GWAS test statistics. Test statistics corresponding to null associations are modeled as random draws from a normal distribution with zero mean; test statistics corresponding to non-null associations are also modeled as normal with zero mean, but with larger variance. The model is fit via minimizing discrepancies between the parametric mixture model and resampling-based nonparametric estimates of replication effect sizes and variances. We describe in detail the implications of this model for estimation of the non-null proportion, the probability of replication in de novo samples, the local false discovery rate, and power for discovery of a specified proportion of phenotypic variance explained from additive effects of loci surpassing a given significance threshold. We also examine the crucial issue of the impact of linkage disequilibrium (LD on effect sizes and parameter estimates, both analytically and in simulations. We apply this approach to meta-analysis test statistics from two large GWAS, one for Crohn's disease (CD and the other for schizophrenia (SZ. A scale mixture of two normals distribution provides an excellent fit to the SZ nonparametric replication effect size estimates. While capturing the general behavior of the data, this mixture model underestimates the tails of the CD effect size distribution. We discuss the

  3. An Empirical Bayes Mixture Model for Effect Size Distributions in Genome-Wide Association Studies.

    Science.gov (United States)

    Thompson, Wesley K; Wang, Yunpeng; Schork, Andrew J; Witoelar, Aree; Zuber, Verena; Xu, Shujing; Werge, Thomas; Holland, Dominic; Andreassen, Ole A; Dale, Anders M

    2015-12-01

    Characterizing the distribution of effects from genome-wide genotyping data is crucial for understanding important aspects of the genetic architecture of complex traits, such as number or proportion of non-null loci, average proportion of phenotypic variance explained per non-null effect, power for discovery, and polygenic risk prediction. To this end, previous work has used effect-size models based on various distributions, including the normal and normal mixture distributions, among others. In this paper we propose a scale mixture of two normals model for effect size distributions of genome-wide association study (GWAS) test statistics. Test statistics corresponding to null associations are modeled as random draws from a normal distribution with zero mean; test statistics corresponding to non-null associations are also modeled as normal with zero mean, but with larger variance. The model is fit via minimizing discrepancies between the parametric mixture model and resampling-based nonparametric estimates of replication effect sizes and variances. We describe in detail the implications of this model for estimation of the non-null proportion, the probability of replication in de novo samples, the local false discovery rate, and power for discovery of a specified proportion of phenotypic variance explained from additive effects of loci surpassing a given significance threshold. We also examine the crucial issue of the impact of linkage disequilibrium (LD) on effect sizes and parameter estimates, both analytically and in simulations. We apply this approach to meta-analysis test statistics from two large GWAS, one for Crohn's disease (CD) and the other for schizophrenia (SZ). A scale mixture of two normals distribution provides an excellent fit to the SZ nonparametric replication effect size estimates. While capturing the general behavior of the data, this mixture model underestimates the tails of the CD effect size distribution. We discuss the implications of

  4. Topology preserving non-rigid image registration using time-varying elasticity model for MRI brain volumes.

    Science.gov (United States)

    Ahmad, Sahar; Khan, Muhammad Faisal

    2015-12-01

    In this paper, we present a new non-rigid image registration method that imposes a topology preservation constraint on the deformation. We propose to incorporate the time varying elasticity model into the deformable image matching procedure and constrain the Jacobian determinant of the transformation over the entire image domain. The motion of elastic bodies is governed by a hyperbolic partial differential equation, generally termed as elastodynamics wave equation, which we propose to use as a deformation model. We carried out clinical image registration experiments on 3D magnetic resonance brain scans from IBSR database. The results of the proposed registration approach in terms of Kappa index and relative overlap computed over the subcortical structures were compared against the existing topology preserving non-rigid image registration methods and non topology preserving variant of our proposed registration scheme. The Jacobian determinant maps obtained with our proposed registration method were qualitatively and quantitatively analyzed. The results demonstrated that the proposed scheme provides good registration accuracy with smooth transformations, thereby guaranteeing the preservation of topology. Copyright © 2015 Elsevier Ltd. All rights reserved.

  5. Economic Impacts of the 1997 EU Energy Tax: Simulations with Three EU-Wide Models

    International Nuclear Information System (INIS)

    Jansen, H.; Klaassen, G.

    2000-01-01

    In March 1997 the European Commission adopted a proposal that increases existing minimum levels of taxation on mineral oils by around 10 to 25% and introduces excises for other energy products. This paper analyses the macroeconomic impacts of the proposal. It employs three models: HERMES, GEM-E3, and E3ME. All models confirm that the proposal will have positive macroeconomic impacts when the tax revenues are used to reduce social security contributions paid by employers. For the EU as a whole, both GDP and employment are expected to be higher and CO2 emissions are 0.9 to 1.6 percent lower. The positive EU-wide effects can be observed in practically all member states. The sector impacts are modest, with the energy sector expected to face the most negative impacts. Differences between model results are due to the model type (general equilibrium or macro-econometric), the EU countries covered and the way tax exemptions were handled. Crucial assumptions to obtain the 'double dividend' are the modelling of the labour market and the impacts on EU external trade. The sensitivity of the results for the use of tax revenues, tax exemptions and tax rate increases is assessed. 21 refs

  6. Cost-benefit analysis model: A tool for area-wide fruit fly management. Procedures manual

    International Nuclear Information System (INIS)

    Enkerlin, W.; Mumford, J.; Leach, A.

    2007-03-01

    The Generic Fruit Fly Cost-Benefit Analysis Model assists in economic decision making associated with area-wide fruit fly control options. The FRUIT FLY COST-BENEFIT ANALYSIS PROGRAM (available on 1 CD-ROM from the Joint FAO/IAEA Programme of Nuclear Techniques in Food and Agriculture) is an Excel 2000 Windows based program, for which all standard Windows and Excel conventions apply. The Model is user friendly and thus largely self-explanatory. Nevertheless, it includes a procedures manual that has been prepared to guide the user, and thus should be used together with the software. Please note that the table presenting the pest management options in the Introductory Page of the model is controlled by spin buttons and click boxes. These controls are linked to macros that hide non relevant tables and boxes. N.B. it is important that the medium level of security is selected from the Tools menu of Excel, to do this go to Tools|Macros|Security| and select Medium. When the file is opened a form will appear containing three buttons, click on the middle button, 'Enable Macros', so that the macros may be used. Ideally the model should be used as a support tool by working groups aiming at assessing the economic returns of different fruit fly control options (suppression, eradication, containment and prevention). The working group should include professionals in agriculture with experience in area-wide implementation of integrated pest management programmes, an economist or at least someone with basic knowledge in economics, and if relevant, an entomologist with some background in the application of the sterile insect technique (SIT)

  7. Modeling 237 Lyman-α spectra of the MUSE-Wide survey

    Science.gov (United States)

    Gronke, Max

    2017-12-01

    We compare 237 Lyman-α (Lyα) spectra of the MUSE-Wide survey to a suite of radiative transfer simulations consisting of a central luminous source within a concentric, moving shell of neutral gas, and dust. This six parameter shell-model has been used numerously in previous studies, however, on significantly smaller data-sets. We find that the shell-model can reproduce the observed spectral shape very well - better than the also common "Gaussian-minus-Gaussian" model which we also fitted to the dataset. Specifically, we find that 94% of the fits possess a goodness-of-fit value of p(χ2) > 0.1. The large number of spectra allows us to robustly characterize the shell-model parameter range, and consequently, the spectral shapes typical for realistic spectra. We find that the vast majority of the Lyα spectral shapes require an outflow and only 5% are well-fitted through an inflowing shell. In addition, we find 46% of the spectra to be consistent with a neutral hydrogen column density < 1017 cm-2 - suggestive of a non-negligible fraction of continuum leakers in the MUSE-Wide sample. Furthermore, we correlate the spectral against the Lyα halo properties against each other but do not find any strong correlation. The full Table A.1 is only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (http://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/608/A139

  8. A discrete time-varying internal model-based approach for high precision tracking of a multi-axis servo gantry.

    Science.gov (United States)

    Zhang, Zhen; Yan, Peng; Jiang, Huan; Ye, Peiqing

    2014-09-01

    In this paper, we consider the discrete time-varying internal model-based control design for high precision tracking of complicated reference trajectories generated by time-varying systems. Based on a novel parallel time-varying internal model structure, asymptotic tracking conditions for the design of internal model units are developed, and a low order robust time-varying stabilizer is further synthesized. In a discrete time setting, the high precision tracking control architecture is deployed on a Voice Coil Motor (VCM) actuated servo gantry system, where numerical simulations and real time experimental results are provided, achieving the tracking errors around 3.5‰ for frequency-varying signals. Copyright © 2014 ISA. Published by Elsevier Ltd. All rights reserved.

  9. Methodological comparison of marginal structural model, time-varying Cox regression, and propensity score methods : the example of antidepressant use and the risk of hip fracture

    NARCIS (Netherlands)

    Ali, M Sanni; Groenwold, Rolf H H; Belitser, Svetlana V; Souverein, Patrick C; Martín, Elisa; Gatto, Nicolle M; Huerta, Consuelo; Gardarsdottir, Helga; Roes, Kit C B; Hoes, Arno W; de Boer, Antonius; Klungel, Olaf H

    2016-01-01

    BACKGROUND: Observational studies including time-varying treatments are prone to confounding. We compared time-varying Cox regression analysis, propensity score (PS) methods, and marginal structural models (MSMs) in a study of antidepressant [selective serotonin reuptake inhibitors (SSRIs)] use and

  10. Application of a simple first-order, non-linear rainfall-runoff model in watersheds of varying permafrost coverage

    Science.gov (United States)

    Bolton, W. Robert; Hinzman, Larry

    2010-05-01

    The arctic and sub-arctic environments can be characterized as being in the zones continuous and discontinuous permafrost. Although the distribution of permafrost in these regions is site specific, it is the major control on many of the hydrologic processes including stream flow, soil moisture dynamics, and water storage processes. In areas underlain by permafrost, ice-rich soils a the permafrost table inhibit surface water percolation to the deep subsurface soils, resulting in an increased runoff generation during precipitation events (including snow melt), decreased baseflow between precipitation events, and relatively wetter soils compared to permafrost-free areas. Over the course of a summer season, the thawing of the active layer (the thin soil layer above the permafrost that seasonally freezes and thaws) increases the potential water holding capacity of the soil, resulting in a decreasing surface water contribution during precipitation events and a steadily increasing baseflow between precipitation events. The major challenge to hydrologic modeling in permafrost affected environments is accounting for the rapid spatial and temporal changes in the soil storage component with the thawing and freezing of the active layer and distribution of permafrost. Simulation of the storage storage component is further complicated as many of the variables that control the development of the active layer (and permafrost distribution) are not easily measurable beyond the point scale. Examples of these variables include soil material, soil moisture content, soil ice content, snow cover and depth, and surface temperature. Kirchner (2009) describes a method in which the total storage of a watershed can be derived directly from discharge measurements - the only hydrologic process that is easily measured at the watershed scale. Following the general procedure outlined by Kirchner, a simple rainfall-runoff model was developed and applied to basins of various scales and permafrost

  11. A varying coefficient model to measure the effectiveness of mass media anti-smoking campaigns in generating calls to a Quitline.

    Science.gov (United States)

    Bui, Quang M; Huggins, Richard M; Hwang, Wen-Han; White, Victoria; Erbas, Bircan

    2010-01-01

    Anti-smoking advertisements are an effective population-based smoking reduction strategy. The Quitline telephone service provides a first point of contact for adults considering quitting. Because of data complexity, the relationship between anti-smoking advertising placement, intensity, and time trends in total call volume is poorly understood. In this study we use a recently developed semi-varying coefficient model to elucidate this relationship. Semi-varying coefficient models comprise parametric and nonparametric components. The model is fitted to the daily number of calls to Quitline in Victoria, Australia to estimate a nonparametric long-term trend and parametric terms for day-of-the-week effects and to clarify the relationship with target audience rating points (TARPs) for the Quit and nicotine replacement advertising campaigns. The number of calls to Quitline increased with the TARP value of both the Quit and other smoking cessation advertisement; the TARP values associated with the Quit program were almost twice as effective. The varying coefficient term was statistically significant for peak periods with little or no advertising. Semi-varying coefficient models are useful for modeling public health data when there is little or no information on other factors related to the at-risk population. These models are well suited to modeling call volume to Quitline, because the varying coefficient allowed the underlying time trend to depend on fixed covariates that also vary with time, thereby explaining more of the variation in the call model.

  12. Constraining Roche-Lobe Overflow Models Using the Hot-Subdwarf Wide Binary Population

    Science.gov (United States)

    Vos, Joris; Vučković, Maja

    2017-12-01

    One of the important issues regarding the final evolution of stars is the impact of binarity. A rich zoo of peculiar, evolved objects are born from the interaction between the loosely bound envelope of a giant, and the gravitational pull of a companion. However, binary interactions are not understood from first principles, and the theoretical models are subject to many assumptions. It is currently agreed upon that hot subdwarf stars can only be formed through binary interaction, either through common envelope ejection or stable Roche-lobe overflow (RLOF) near the tip of the red giant branch (RGB). These systems are therefore an ideal testing ground for binary interaction models. With our long term study of wide hot subdwarf (sdB) binaries we aim to improve our current understanding of stable RLOF on the RGB by comparing the results of binary population synthesis studies with the observed population. In this article we describe the current model and possible improvements, and which observables can be used to test different parts of the interaction model.

  13. On the potential of models for location and scale for genome-wide DNA methylation data.

    Science.gov (United States)

    Wahl, Simone; Fenske, Nora; Zeilinger, Sonja; Suhre, Karsten; Gieger, Christian; Waldenberger, Melanie; Grallert, Harald; Schmid, Matthias

    2014-07-03

    With the help of epigenome-wide association studies (EWAS), increasing knowledge on the role of epigenetic mechanisms such as DNA methylation in disease processes is obtained. In addition, EWAS aid the understanding of behavioral and environmental effects on DNA methylation. In terms of statistical analysis, specific challenges arise from the characteristics of methylation data. First, methylation β-values represent proportions with skewed and heteroscedastic distributions. Thus, traditional modeling strategies assuming a normally distributed response might not be appropriate. Second, recent evidence suggests that not only mean differences but also variability in site-specific DNA methylation associates with diseases, including cancer. The purpose of this study was to compare different modeling strategies for methylation data in terms of model performance and performance of downstream hypothesis tests. Specifically, we used the generalized additive models for location, scale and shape (GAMLSS) framework to compare beta regression with Gaussian regression on raw, binary logit and arcsine square root transformed methylation data, with and without modeling a covariate effect on the scale parameter. Using simulated and real data from a large population-based study and an independent sample of cancer patients and healthy controls, we show that beta regression does not outperform competing strategies in terms of model performance. In addition, Gaussian models for location and scale showed an improved performance as compared to models for location only. The best performance was observed for the Gaussian model on binary logit transformed β-values, referred to as M-values. Our results further suggest that models for location and scale are specifically sensitive towards violations of the distribution assumption and towards outliers in the methylation data. Therefore, a resampling procedure is proposed as a mode of inference and shown to diminish type I error rate in

  14. Genome-wide single nucleotide polymorphisms (SNPs) for a model invasive ascidian Botryllus schlosseri.

    Science.gov (United States)

    Gao, Yangchun; Li, Shiguo; Zhan, Aibin

    2018-04-01

    Invasive species cause huge damages to ecology, environment and economy globally. The comprehensive understanding of invasion mechanisms, particularly genetic bases of micro-evolutionary processes responsible for invasion success, is essential for reducing potential damages caused by invasive species. The golden star tunicate, Botryllus schlosseri, has become a model species in invasion biology, mainly owing to its high invasiveness nature and small well-sequenced genome. However, the genome-wide genetic markers have not been well developed in this highly invasive species, thus limiting the comprehensive understanding of genetic mechanisms of invasion success. Using restriction site-associated DNA (RAD) tag sequencing, here we developed a high-quality resource of 14,119 out of 158,821 SNPs for B. schlosseri. These SNPs were relatively evenly distributed at each chromosome. SNP annotations showed that the majority of SNPs (63.20%) were located at intergenic regions, and 21.51% and 14.58% were located at introns and exons, respectively. In addition, the potential use of the developed SNPs for population genomics studies was primarily assessed, such as the estimate of observed heterozygosity (H O ), expected heterozygosity (H E ), nucleotide diversity (π), Wright's inbreeding coefficient (F IS ) and effective population size (Ne). Our developed SNP resource would provide future studies the genome-wide genetic markers for genetic and genomic investigations, such as genetic bases of micro-evolutionary processes responsible for invasion success.

  15. Estimation of Coast-Wide Population Trends of Marbled Murrelets in Canada Using a Bayesian Hierarchical Model.

    Directory of Open Access Journals (Sweden)

    Douglas F Bertram

    Full Text Available Species at risk with secretive breeding behaviours, low densities, and wide geographic range pose a significant challenge to conservation actions because population trends are difficult to detect. Such is the case with the Marbled Murrelet (Brachyramphus marmoratus, a seabird listed as 'Threatened' by the Species at Risk Act in Canada largely due to the loss of its old growth forest nesting habitat. We report the first estimates of population trend of Marbled Murrelets in Canada derived from a monitoring program that uses marine radar to detect birds as they enter forest watersheds during 923 dawn surveys at 58 radar monitoring stations within the six Marbled Murrelet Conservation Regions on coastal British Columbia, Canada, 1996-2013. Temporal trends in radar counts were analyzed with a hierarchical Bayesian multivariate modeling approach that controlled for variation in tilt of the radar unit and day of year, included year-specific deviations from the overall trend ('year effects', and allowed for trends to be estimated at three spatial scales. A negative overall trend of -1.6%/yr (95% credibility interval: -3.2%, 0.01% indicated moderate evidence for a coast-wide decline, although trends varied strongly among the six conservation regions. Negative annual trends were detected in East Vancouver Island (-9%/yr and South Mainland Coast (-3%/yr Conservation Regions. Over a quarter of the year effects were significantly different from zero, and the estimated standard deviation in common-shared year effects between sites within each region was about 50% per year. This large common-shared interannual variation in counts may have been caused by regional movements of birds related to changes in marine conditions that affect the availability of prey.

  16. Does cost-effectiveness of influenza vaccine choice vary across the U.S.? An agent-based modeling study.

    Science.gov (United States)

    DePasse, Jay V; Nowalk, Mary Patricia; Smith, Kenneth J; Raviotta, Jonathan M; Shim, Eunha; Zimmerman, Richard K; Brown, Shawn T

    2017-07-13

    In a prior agent-based modeling study, offering a choice of influenza vaccine type was shown to be cost-effective when the simulated population represented the large, Washington DC metropolitan area. This study calculated the public health impact and cost-effectiveness of the same four strategies: No Choice, Pediatric Choice, Adult Choice, or Choice for Both Age Groups in five United States (U.S.) counties selected to represent extremes in population age distribution. The choice offered was either inactivated influenza vaccine delivered intramuscularly with a needle (IIV-IM) or an age-appropriate needle-sparing vaccine, specifically, the nasal spray (LAIV) or intradermal (IIV-ID) delivery system. Using agent-based modeling, individuals were simulated as they interacted with others, and influenza was tracked as it spread through each population. Influenza vaccination coverage derived from Centers for Disease Control and Prevention (CDC) data, was increased by 6.5% (range 3.25%-11.25%) to reflect the effects of vaccine choice. Assuming moderate influenza infectivity, the number of averted cases was highest for the Choice for Both Age Groups in all five counties despite differing demographic profiles. In a cost-effectiveness analysis, Choice for Both Age Groups was the dominant strategy. Sensitivity analyses varying influenza infectivity, costs, and degrees of vaccine coverage increase due to choice, supported the base case findings. Offering a choice to receive a needle-sparing influenza vaccine has the potential to significantly reduce influenza disease burden and to be cost saving. Consistent findings across diverse populations confirmed these findings. Copyright © 2017 Elsevier Ltd. All rights reserved.

  17. Wide-area Power System Oscillation Damping using Model Predictive Control Technique

    Science.gov (United States)

    Mohamed, Tarek Hassan; Abdel-Rahim, Abdel-Moamen Mohammed; Hassan, Ahmed Abd-Eltawwab; Hiyama, Takashi

    This paper presents a new approach to deal with the problem of robust tuning of power system stabilizer (PSS) and automatic voltage regulator (AVR) in multi-machine power systems. The proposed method is based on a model predictive control (MPC) technique, for improvement stability of the wide-area power system with multiple generators and distribution systems including dispersed generations. The proposed method provides better damping of power system oscillations under small and large disturbances even with the inclusion of local PSSs. The effectiveness of the proposed approach is demonstrated through a two areas, four machines power system. A performance comparison between the proposed controller and some of other controllers is carried out confirming the superiority of the proposed technique. It has also been observed that the proposed algorithm can be successfully applied to larger multiarea power systems and do not suffer with computational difficulties. The proposed algorithm carried out using MATLAB/SIMULINK software package.

  18. Sparsely correlated hidden Markov models with application to genome-wide location studies.

    Science.gov (United States)

    Choi, Hyungwon; Fermin, Damian; Nesvizhskii, Alexey I; Ghosh, Debashis; Qin, Zhaohui S

    2013-03-01

    Multiply correlated datasets have become increasingly common in genome-wide location analysis of regulatory proteins and epigenetic modifications. Their correlation can be directly incorporated into a statistical model to capture underlying biological interactions, but such modeling quickly becomes computationally intractable. We present sparsely correlated hidden Markov models (scHMM), a novel method for performing simultaneous hidden Markov model (HMM) inference for multiple genomic datasets. In scHMM, a single HMM is assumed for each series, but the transition probability in each series depends on not only its own hidden states but also the hidden states of other related series. For each series, scHMM uses penalized regression to select a subset of the other data series and estimate their effects on the odds of each transition in the given series. Following this, hidden states are inferred using a standard forward-backward algorithm, with the transition probabilities adjusted by the model at each position, which helps retain the order of computation close to fitting independent HMMs (iHMM). Hence, scHMM is a collection of inter-dependent non-homogeneous HMMs, capable of giving a close approximation to a fully multivariate HMM fit. A simulation study shows that scHMM achieves comparable sensitivity to the multivariate HMM fit at a much lower computational cost. The method was demonstrated in the joint analysis of 39 histone modifications, CTCF and RNA polymerase II in human CD4+ T cells. scHMM reported fewer high-confidence regions than iHMM in this dataset, but scHMM could recover previously characterized histone modifications in relevant genomic regions better than iHMM. In addition, the resulting combinatorial patterns from scHMM could be better mapped to the 51 states reported by the multivariate HMM method of Ernst and Kellis. The scHMM package can be freely downloaded from http://sourceforge.net/p/schmm/ and is recommended for use in a linux environment.

  19. Improved climate model evaluation using a new, 750-year Antarctic-wide snow accumulation product

    Science.gov (United States)

    Medley, B.; Thomas, E. R.

    2017-12-01

    Snow that accumulates over the cold, dry grounded ice of Antarctica is an important component of its mass balance, mitigating the ice sheet's contribution to sea level. Secular trends in accumulation not only result trends in the mass balance of the Antarctic Ice Sheet, but also directly and indirectly impact surface height changes. Long-term and spatiotemporally complete records of snow accumulation are needed to understand part and present Antarctic-wide mass balance, to convert from altimetry derived volume change to mass change, and to evaluate the ability of climate models to reproduce the observed climate change. We need measurements in both time and space, yet they typically sample one dimension at the expense of the other. Here, we develop a spatially complete, annually resolved snow accumulation product for the Antarctic Ice Sheet over the past 750 years by combining a newly compiled database of ice core accumulation records with climate model output. We mainly focus on climate model evaluation. Because the product spans several centuries, we can evaluate model ability in representing the preindustrial as well as present day accumulation change. Significant long-term trends in snow accumulation are found over the Ross and Bellingshausen Sea sectors of West Antarctica, the Antarctic Peninsula, and several sectors in East Antarctica. These results suggest that change is more complex over the Antarctic Ice Sheet than a simple uniform change (i.e., more snowfall in a warming world), which highlights the importance of atmospheric circulation as a major driver of change. By evaluating several climate models' ability to reproduce the observed trends, we can deduce whether their projections are reasonable or potentially biased where the latter would result in a misrepresentation of the Antarctic contribution to sea level.

  20. Modeling the complexity of dynamic, momentary interpersonal behavior: Applying the time-varying effect model to test predictions from interpersonal theory.

    Science.gov (United States)

    Dermody, Sarah S; Thomas, Katherine M; Hopwood, Christopher J; Durbin, C Emily; Wright, Aidan G C

    2017-06-01

    This paper demonstrates a recently-popularized quantitative method, the time-varying effect model (TVEM), in describing dynamic, momentary interpersonal processes implicated by Interpersonal Theory. We investigated moment-to-moment complementarity in affiliation and control behaviors (i.e., correspondence in affiliation and reciprocity in control between married dyad members) in a five-minute interaction (N=135), and how complementarity changed over time. Overall, results supported complementarity in affiliation and control. Moreover, effects were time-varying: Complementarity in affiliation increased over time and complementary in control changed over time in a cyclical manner. Dyadic adjustment moderated the strength in complementarity in control during specific timeframes. We discuss implications of these results and future directions. The findings support the utility of TVEM for studying dynamic and time-dependent interpersonal processes.

  1. Ventricular flow dynamics with varying LVAD inflow cannula lengths: In-silico evaluation in a multiscale model.

    Science.gov (United States)

    Liao, Sam; Neidlin, Michael; Li, Zhiyong; Simpson, Benjamin; Gregory, Shaun D

    2018-03-10

    Left ventricular assist devices are associated with thromboembolic events, which are potentially caused by altered intraventricular flow. Due to patient variability, differences in apical wall thickness affects cannula insertion lengths, potentially promoting unfavourable intraventricular flow patterns which are thought to be correlated to the risk of thrombosis. This study aimed to present a 3D multiscale computational fluid dynamic model of the left ventricle (LV) developed using a commercial software, Ansys, and evaluate the risk of thrombosis with varying inflow cannula insertion lengths in a severely dilated LV. Based on a HeartWare HVAD inflow cannula, insertion lengths of 5, 19, 24 and 50 mm represented cases of apical hypertrophy, typical ranges of apical thicknesses and an experimental length, respectively. The risk of thrombosis was evaluated based on blood washout, residence time, instantaneous blood stagnation and a pulsatility index. By introducing fresh blood to displace pre-existing blood in the LV, after 5 cardiac cycles, 46.7%, 45.7%, 45.1% and 41.8% of pre-existing blood remained for insertion lengths of 5, 19, 24 and 50 mm, respectively. Compared to the 50 mm insertion, blood residence time was at least 9%, 7% and 6% higher with the 5, 19 and 24 mm insertion lengths, respectively. No instantaneous stagnation at the apex was observed directly after the E-wave. Pulsatility indices adjacent to the cannula increased with shorter insertion lengths. For the specific scenario studied, a longer insertion length, relative to LV size, may be advantageous to minimise thrombosis by increasing LV washout and reducing blood residence time. Copyright © 2018 Elsevier Ltd. All rights reserved.

  2. Influenza H1N1 and the world wide economic crisis--a model of coherence?

    Science.gov (United States)

    Sperling, W; Biermann, T

    2009-11-01

    A recent published model described the phenomenon of a global panic reaction (GPR) on the stock markets based on two remarkable stock market crashes in the months of January and March [Sperling W, Bleich S, Reulbach U, Black Monday on stock markets throughout the world - a new phenomenon of collective panic disorder? A psychiatric approach. Med Hypotheses; 2008]. This model was completed by a therapeutic approach following typical elements of cognitive behavioural therapy (CBT) [Sperling W, Biermann T, Maler JM, Global panic reaction - a therapeutic approach to a world-wide economic crisis. Med Hypotheses; 2009]. The phenomenon of a global panic reaction due to economic crises seems to have even larger implications on human health as well. It is well known that acute and chronic distress is competent to suppress the immune system by various mechanisms that are discussed in detail. This global panic reaction - that has also been observed in former times - might therefore be responsible for the new variation of recent influenza pandemic coming from Mexico.

  3. A genome-wide longitudinal transcriptome analysis of the aging model Podospora anserina.

    Directory of Open Access Journals (Sweden)

    Oliver Philipp

    Full Text Available Aging of biological systems is controlled by various processes which have a potential impact on gene expression. Here we report a genome-wide transcriptome analysis of the fungal aging model Podospora anserina. Total RNA of three individuals of defined age were pooled and analyzed by SuperSAGE (serial analysis of gene expression. A bioinformatics analysis identified different molecular pathways to be affected during aging. While the abundance of transcripts linked to ribosomes and to the proteasome quality control system were found to decrease during aging, those associated with autophagy increase, suggesting that autophagy may act as a compensatory quality control pathway. Transcript profiles associated with the energy metabolism including mitochondrial functions were identified to fluctuate during aging. Comparison of wild-type transcripts, which are continuously down-regulated during aging, with those down-regulated in the long-lived, copper-uptake mutant grisea, validated the relevance of age-related changes in cellular copper metabolism. Overall, we (i present a unique age-related data set of a longitudinal study of the experimental aging model P. anserina which represents a reference resource for future investigations in a variety of organisms, (ii suggest autophagy to be a key quality control pathway that becomes active once other pathways fail, and (iii present testable predictions for subsequent experimental investigations.

  4. Hierarchical modeling of genome-wide Short Tandem Repeat (STR) markers infers native American prehistory.

    Science.gov (United States)

    Lewis, Cecil M

    2010-02-01

    This study examines a genome-wide dataset of 678 Short Tandem Repeat loci characterized in 444 individuals representing 29 Native American populations as well as the Tundra Netsi and Yakut populations from Siberia. Using these data, the study tests four current hypotheses regarding the hierarchical distribution of neutral genetic variation in native South American populations: (1) the western region of South America harbors more variation than the eastern region of South America, (2) Central American and western South American populations cluster exclusively, (3) populations speaking the Chibchan-Paezan and Equatorial-Tucanoan language stock emerge as a group within an otherwise South American clade, (4) Chibchan-Paezan populations in Central America emerge together at the tips of the Chibchan-Paezan cluster. This study finds that hierarchical models with the best fit place Central American populations, and populations speaking the Chibchan-Paezan language stock, at a basal position or separated from the South American group, which is more consistent with a serial founder effect into South America than that previously described. Western (Andean) South America is found to harbor similar levels of variation as eastern (Equatorial-Tucanoan and Ge-Pano-Carib) South America, which is inconsistent with an initial west coast migration into South America. Moreover, in all relevant models, the estimates of genetic diversity within geographic regions suggest a major bottleneck or founder effect occurring within the North American subcontinent, before the peopling of Central and South America. 2009 Wiley-Liss, Inc.

  5. Crustal structure of the NE Rockall Trough from wide-angle seismic data modeling

    Science.gov (United States)

    KlingelhöFer, F.; Edwards, R. A.; Hobbs, R. W.; England, R. W.

    2005-11-01

    Two wide-angle seismic lines located in the northern Rockall Trough were acquired in May 2000. One line (line E) crosses the trough from the continental shelf off Lewis to normal oceanic crust west of Lousy Bank in NW-SE direction. The other line (line D) intersects with line E, crosses the Wyville-Thomson Ridge in a SW-NE direction and ends in the Faeroe-Shetland Basin. Sonobuoy data and expanding spread profiles acquired in the same area have been remodeled. Analysis of the seismic data using travel times and amplitudes reveals an up to 5 km thick sedimentary basin including an up to 1.5 km thick basaltic layer which is present in most of the trough. Further conclusions of this study are that the Rockall Trough is underlain by highly stretched continental crust of ˜13 km thickness. The crust thickens to ˜24 km beneath Lousy Bank, which is interpreted to be of continental nature. Beneath the Hebrides continental shelf a three-layer continental crust of 26 km is modeled. An up to 12 km thick high-velocity layer is observed underneath the ocean-continent boundary and is interpreted as magmatic underplating resulting from excess volcanism during rifting. No evidence for an underplate layer could be distinguished beneath the trough area. Modeling of the structure of the Wyville-Thomson Ridge revealed no existing igneous core of the ridge confirming existing theories, that it is a compressional structure.

  6. Earth's crust model of the South-Okhotsk Basin by wide-angle OBS data

    Science.gov (United States)

    Kashubin, Sergey N.; Petrov, Oleg V.; Rybalka, Alexander V.; Milshtein, Evgenia D.; Shokalsky, Sergey P.; Verba, Mark L.; Petrov, Evgeniy O.

    2017-07-01

    Deep seismic studies of the Sea of Okhotsk region started in late 1950s. Since that time, wide-angle reflection and refraction data on more than two dozen profiles were acquired. Only five of those profiles either crossed or entered the deep-water area of the South-Okhotsk Basin (also known as the Kuril Basin or the South-Okhotsk Deep-Water Trough). Only P-waves were used to develop velocity-interface models in all the early research. Thus, all seismic and geodynamic models of the Okhotsk region were based only on the information on compressional waves. Nevertheless, the use of Vp/Vs ratio in addition to P-wave velocity allows discriminating felsic and mafic crustal layers with similar Vp values. In 2007 the Russian seismic service company Sevmorgeo acquired multi-component data with ocean bottom seismometers (OBS) along the 1700-km-long north-south 2-DV-M Profile. Only P-wave information was used previously to develop models for the entire profile. In this study, a multi-wave processing, analysis, and interpretation of the OBS data are presented for the 550-km-long southern segment of this Profile that crosses the deep-water South-Okhotsk Basin. Within this segment 50 seismometers were deployed with nominal OBS station spacing of 10-12 km. Shot point spacing was 250 m. Not only primary P-waves and S-waves but also multiples and P-S, S-P converted waves were analyzed in this study to constrain velocity-interface models by means of travel time forward modeling. In offshore deep seismic studies, thick water layer hinders an estimation of velocities in the sedimentary cover and in the upper consolidated crust. Primarily, this is due to the fact that refracted waves propagating in low-velocity solid upper layers interfere with high-amplitude direct water wave. However, in multi-component measurements with ocean bottom seismometers, it is possible to use converted and multiple waves for velocity estimations in these layers. Consequently, one can obtain P- and S

  7. A Bayesian Supertree Model for Genome-Wide Species Tree Reconstruction.

    Science.gov (United States)

    De Oliveira Martins, Leonardo; Mallo, Diego; Posada, David

    2016-05-01

    Current phylogenomic data sets highlight the need for species tree methods able to deal with several sources of gene tree/species tree incongruence. At the same time, we need to make most use of all available data. Most species tree methods deal with single processes of phylogenetic discordance, namely, gene duplication and loss, incomplete lineage sorting (ILS) or horizontal gene transfer. In this manuscript, we address the problem of species tree inference from multilocus, genome-wide data sets regardless of the presence of gene duplication and loss and ILS therefore without the need to identify orthologs or to use a single individual per species. We do this by extending the idea of Maximum Likelihood (ML) supertrees to a hierarchical Bayesian model where several sources of gene tree/species tree disagreement can be accounted for in a modular manner. We implemented this model in a computer program called guenomu whose inputs are posterior distributions of unrooted gene tree topologies for multiple gene families, and whose output is the posterior distribution of rooted species tree topologies. We conducted extensive simulations to evaluate the performance of our approach in comparison with other species tree approaches able to deal with more than one leaf from the same species. Our method ranked best under simulated data sets, in spite of ignoring branch lengths, and performed well on empirical data, as well as being fast enough to analyze relatively large data sets. Our Bayesian supertree method was also very successful in obtaining better estimates of gene trees, by reducing the uncertainty in their distributions. In addition, our results show that under complex simulation scenarios, gene tree parsimony is also a competitive approach once we consider its speed, in contrast to more sophisticated models. © The Author(s) 2014. Published by Oxford University Press on behalf of the Society of Systematic Biologists.

  8. Assimilation of satellite reflectance data into a dynamical leaf model to infer seasonally varying leaf areas for climate and carbon models

    Science.gov (United States)

    Liu, Q.; Gu, L.; Dickinson, R. E.; Tian, Y.; Zhou, L.; Post, W. M.

    2008-10-01

    Leaf area index is an important input for many climate and carbon models. The widely used leaf area products derived from satellite-observed surface reflectances contain substantial erratic fluctuations in time due to inadequate atmospheric corrections and observational and retrieval uncertainties. These fluctuations are inconsistent with the seasonal dynamics of leaf area, known to be gradual. Their use in process-based terrestrial carbon models corrupts model behavior, making diagnosis of model performance difficult. We propose a data assimilation approach that combines the satellite observations of Moderate Resolution Imaging Spectroradiometer (MODIS) albedo with a dynamical leaf model. Its novelty is that the seasonal cycle of the directly retrieved leaf areas is smooth and consistent with both observations and current understandings of processes controlling leaf area dynamics. The approach optimizes the dynamical model parameters such that the difference between the estimated surface reflectances based on the modeled leaf area and those of satellite observations is minimized. We demonstrate the usefulness and advantage of our new approach at multiple deciduous forest sites in the United States.

  9. Testing Quantum Models of Conjunction Fallacy on the World Wide Web

    Science.gov (United States)

    Aerts, Diederik; Arguëlles, Jonito Aerts; Beltran, Lester; Beltran, Lyneth; de Bianchi, Massimiliano Sassoli; Sozzo, Sandro; Veloz, Tomas

    2017-12-01

    The `conjunction fallacy' has been extensively debated by scholars in cognitive science and, in recent times, the discussion has been enriched by the proposal of modeling the fallacy using the quantum formalism. Two major quantum approaches have been put forward: the first assumes that respondents use a two-step sequential reasoning and that the fallacy results from the presence of `question order effects'; the second assumes that respondents evaluate the cognitive situation as a whole and that the fallacy results from the `emergence of new meanings', as an `effect of overextension' in the conceptual conjunction. Thus, the question arises as to determine whether and to what extent conjunction fallacies would result from `order effects' or, instead, from `emergence effects'. To help clarify this situation, we propose to use the World Wide Web as an `information space' that can be interrogated both in a sequential and non-sequential way, to test these two quantum approaches. We find that `emergence effects', and not `order effects', should be considered the main cognitive mechanism producing the observed conjunction fallacies.

  10. Open switching of current varying inductance

    International Nuclear Information System (INIS)

    Zubkov, P.I.; Lukyanchikov, L.A.; Ten, K.A.

    1990-01-01

    The electromotive force of induction occurs in a varying inductance of a current circuit part. It can be used to control and switch the current. The effect, occurring under the forced inductance decrease, is used widely for explosive magnetic generators to produce high currents, to store high-density energy and to generate superhigh magnetic fields. This paper gives an analysis of open switching of the currents by varying inductance in some simple electrotechnical models of circuits used in pulse power engineering to obtain high energies

  11. Comparing spatially varying coefficient models: a case study examining violent crime rates and their relationships to alcohol outlets and illegal drug arrests

    Science.gov (United States)

    Wheeler, David C.; Waller, Lance A.

    2009-03-01

    In this paper, we compare and contrast a Bayesian spatially varying coefficient process (SVCP) model with a geographically weighted regression (GWR) model for the estimation of the potentially spatially varying regression effects of alcohol outlets and illegal drug activity on violent crime in Houston, Texas. In addition, we focus on the inherent coefficient shrinkage properties of the Bayesian SVCP model as a way to address increased coefficient variance that follows from collinearity in GWR models. We outline the advantages of the Bayesian model in terms of reducing inflated coefficient variance, enhanced model flexibility, and more formal measuring of model uncertainty for prediction. We find spatially varying effects for alcohol outlets and drug violations, but the amount of variation depends on the type of model used. For the Bayesian model, this variation is controllable through the amount of prior influence placed on the variance of the coefficients. For example, the spatial pattern of coefficients is similar for the GWR and Bayesian models when a relatively large prior variance is used in the Bayesian model.

  12. Time-Varying Identification Model for Crack Monitoring Data from Concrete Dams Based on Support Vector Regression and the Bayesian Framework

    OpenAIRE

    Chen, Bo; Wu, Zhongru; Liang, Jiachen; Dou, Yanhong

    2017-01-01

    The modeling of cracks and identification of dam behavior changes are difficult issues in dam health monitoring research. In this paper, a time-varying identification model for crack monitoring data is built using support vector regression (SVR) and the Bayesian evidence framework (BEF). First, the SVR method is adopted for better modeling of the nonlinear relationship between the crack opening displacement (COD) and its influencing factors. Second, the BEF approach is applied to determine th...

  13. Benchmark simulation Model no 2 in Matlab-simulink: towards plant-wide WWTP control strategy evaluation.

    Science.gov (United States)

    Vreck, D; Gernaey, K V; Rosen, C; Jeppsson, U

    2006-01-01

    In this paper, implementation of the Benchmark Simulation Model No 2 (BSM2) within Matlab-Simulink is presented. The BSM2 is developed for plant-wide WWTP control strategy evaluation on a long-term basis. It consists of a pre-treatment process, an activated sludge process and sludge treatment processes. Extended evaluation criteria are proposed for plant-wide control strategy assessment. Default open-loop and closed-loop strategies are also proposed to be used as references with which to compare other control strategies. Simulations indicate that the BM2 is an appropriate tool for plant-wide control strategy evaluation.

  14. An automated method to morph finite element whole-body human models with a wide range of stature and body shape for both men and women.

    Science.gov (United States)

    Zhang, Kai; Cao, Libo; Fanta, Abeselom; Reed, Matthew P; Neal, Mark; Wang, Jenne-Tai; Lin, Chin-Hsu; Hu, Jingwen

    2017-07-26

    Field data analyses have shown that small female, obese, and/or older occupants are at increased risks of death and serious injury in motor-vehicle crashes compared with mid-size young men. The current adult finite element (FE) human models represent occupants in the same three body sizes (large male, mid-size male, and small female) as those for the contemporary adult crash dummies. Further, the time needed to develop an FE human model using the traditional method is measured in months or even years. In the current study, an improved regional mesh morphing method based on landmark-based radial basis function (RBF) interpolation was developed to rapidly morph a mid-size male FE human model into different geometry targets. A total of 100 human models with a wide range of human attributes were generated. A pendulum chest impact condition was applied to each model as an initial assessment of the resulting variability in response. The morphed models demonstrated mesh quality similar to the baseline model. The peak impact forces and chest deflections in the chest pendulum impacts varied substantially with different models, supportive of consideration of population variation in evaluating the occupant injury risks. The method developed in this study will enable future safety design optimizations targeting at various vulnerable populations that cannot be considered with the current models. Copyright © 2017 Elsevier Ltd. All rights reserved.

  15. Time-Varying Identification Model for Crack Monitoring Data from Concrete Dams Based on Support Vector Regression and the Bayesian Framework

    Directory of Open Access Journals (Sweden)

    Bo Chen

    2017-01-01

    Full Text Available The modeling of cracks and identification of dam behavior changes are difficult issues in dam health monitoring research. In this paper, a time-varying identification model for crack monitoring data is built using support vector regression (SVR and the Bayesian evidence framework (BEF. First, the SVR method is adopted for better modeling of the nonlinear relationship between the crack opening displacement (COD and its influencing factors. Second, the BEF approach is applied to determine the optimal SVR modeling parameters, including the penalty coefficient, the loss coefficient, and the width coefficient of the radial kernel function, under the principle that the prediction errors between the monitored and the model forecasted values are as small as possible. Then, considering the predicted COD, the historical maximum COD, and the time-dependent component, forewarning criteria are proposed for identifying the time-varying behavior of cracks and the degree of abnormality of dam health. Finally, an example of modeling and forewarning analysis is presented using two monitoring subsequences from a real structural crack in the Chencun concrete arch-gravity dam. The findings indicate that the proposed time-varying model can provide predicted results that are more accurately nonlinearity fitted and is suitable for use in evaluating the behavior of cracks in dams.

  16. Uncertainties in predicting rice yield by current crop models under a wide range of climatic conditions

    NARCIS (Netherlands)

    Li, T.; Hasegawa, T.; Yin, X.; Zhu, Y.; Boote, K.; Adam, M.; Bregaglio, S.; Buis, S.; Confalonieri, R.; Fumoto, T.; Gaydon, D.; Marcaida III, M.; Nakagawa, H.; Oriol, P.; Ruane, A.C.; Ruget, F.; Singh, B.; Singh, U.; Tang, L.; Yoshida, H.; Zhang, Z.; Bouman, B.

    2015-01-01

    Predicting rice (Oryza sativa) productivity under future climates is important for global food security. Ecophysiological crop models in combination with climate model outputs are commonly used in yield prediction, but uncertainties associated with crop models remain largely unquantified. We

  17. ROI-ORIENTATED SENSOR CORRECTION BASED ON VIRTUAL STEADY REIMAGING MODEL FOR WIDE SWATH HIGH RESOLUTION OPTICAL SATELLITE IMAGERY

    Directory of Open Access Journals (Sweden)

    Y. Zhu

    2017-09-01

    Full Text Available To meet the requirement of high accuracy and high speed processing for wide swath high resolution optical satellite imagery under emergency situation in both ground processing system and on-board processing system. This paper proposed a ROI-orientated sensor correction algorithm based on virtual steady reimaging model for wide swath high resolution optical satellite imagery. Firstly, the imaging time and spatial window of the ROI is determined by a dynamic search method. Then, the dynamic ROI sensor correction model based on virtual steady reimaging model is constructed. Finally, the corrected image corresponding to the ROI is generated based on the coordinates mapping relationship which is established by the dynamic sensor correction model for corrected image and rigours imaging model for original image. Two experimental results show that the image registration between panchromatic and multispectral images can be well achieved and the image distortion caused by satellite jitter can be also corrected efficiently.

  18. Modeling uranium(VI) adsorption onto montmorillonite under varying carbonate concentrations: A surface complexation model accounting for the spillover effect on surface potential

    Science.gov (United States)

    Tournassat, C.; Tinnacher, R. M.; Grangeon, S.; Davis, J. A.

    2018-01-01

    The prediction of U(VI) adsorption onto montmorillonite clay is confounded by the complexities of: (1) the montmorillonite structure in terms of adsorption sites on basal and edge surfaces, and the complex interactions between the electrical double layers at these surfaces, and (2) U(VI) solution speciation, which can include cationic, anionic and neutral species. Previous U(VI)-montmorillonite adsorption and modeling studies have typically expanded classical surface complexation modeling approaches, initially developed for simple oxides, to include both cation exchange and surface complexation reactions. However, previous models have not taken into account the unique characteristics of electrostatic surface potentials that occur at montmorillonite edge sites, where the electrostatic surface potential of basal plane cation exchange sites influences the surface potential of neighboring edge sites ('spillover' effect). A series of U(VI) - Na-montmorillonite batch adsorption experiments was conducted as a function of pH, with variable U(VI), Ca, and dissolved carbonate concentrations. Based on the experimental data, a new type of surface complexation model (SCM) was developed for montmorillonite, that specifically accounts for the spillover effect using the edge surface speciation model by Tournassat et al. (2016a). The SCM allows for a prediction of U(VI) adsorption under varying chemical conditions with a minimum number of fitting parameters, not only for our own experimental results, but also for a number of published data sets. The model agreed well with many of these datasets without introducing a second site type or including the formation of ternary U(VI)-carbonato surface complexes. The model predictions were greatly impacted by utilizing analytical measurements of dissolved inorganic carbon (DIC) concentrations in individual sample solutions rather than assuming solution equilibration with a specific partial pressure of CO2, even when the gas phase was

  19. Mathematical model of quasi-equilibrium counter-flow processes of rare earth metal separation by solvent extraction when varying the composition of initial raw materials

    International Nuclear Information System (INIS)

    Pyartman, A.K.; Puzikov, E.A.

    1994-01-01

    A mathematical model for the description of rare earths (3) distribution, depending on the number of contact steps for quasiequilibrium counter-flow processes of rare earths separation by the method of solvent extraction with varying the composition of initial source material, has been suggested. Algorithm of computer calculation is provided. The mathematical model has been employed to choose the optimal conditions for didymium concentrate separation. 7 refs.; 3 figs.; 1 tab

  20. A mathematical model of quasi-equilibrium counter-flow processes of rare earth metal separation by solvent extraction when varying the composition of raw material

    International Nuclear Information System (INIS)

    Pyartman, A.K.; Puzikov, E.A.; Kopyrin, A.A.

    1994-01-01

    A mathematical model for description of rare earth metals (3) distribution, depending on the number of contact steps, for quasiequilibrium counter-flow processes of rare earth metals (3) separation by the method of solvent extraction with varying the composition of initial source material is suggested. Algorithm of calculation using computer is provided. The mathematical model is employed for selecting the optimal conditions of didymium concentrate separation. 7 refs., 3 figs., 1 tab

  1. Validation of a plant-wide phosphorus modelling approach with minerals precipitation in a full-scale WWTP.

    Science.gov (United States)

    Kazadi Mbamba, Christian; Flores-Alsina, Xavier; John Batstone, Damien; Tait, Stephan

    2016-09-01

    The focus of modelling in wastewater treatment is shifting from single unit to plant-wide scale. Plant-wide modelling approaches provide opportunities to study the dynamics and interactions of different transformations in water and sludge streams. Towards developing more general and robust simulation tools applicable to a broad range of wastewater engineering problems, this paper evaluates a plant-wide model built with sub-models from the Benchmark Simulation Model No. 2-P (BSM2-P) with an improved/expanded physico-chemical framework (PCF). The PCF includes a simple and validated equilibrium approach describing ion speciation and ion pairing with kinetic multiple minerals precipitation. Model performance is evaluated against data sets from a full-scale wastewater treatment plant, assessing capability to describe water and sludge lines across the treatment process under steady-state operation. With default rate kinetic and stoichiometric parameters, a good general agreement is observed between the full-scale datasets and the simulated results under steady-state conditions. Simulation results show differences between measured and modelled phosphorus as little as 4-15% (relative) throughout the entire plant. Dynamic influent profiles were generated using a calibrated influent generator and were used to study the effect of long-term influent dynamics on plant performance. Model-based analysis shows that minerals precipitation strongly influences composition in the anaerobic digesters, but also impacts on nutrient loading across the entire plant. A forecasted implementation of nutrient recovery by struvite crystallization (model scenario only), reduced the phosphorus content in the treatment plant influent (via centrate recycling) considerably and thus decreased phosphorus in the treated outflow by up to 43%. Overall, the evaluated plant-wide model is able to jointly describe the physico-chemical and biological processes, and is advocated for future use as a tool for

  2. Interacting viscous entropy-corrected holographic scalar field models of dark energy with time-varying G in modified FRW cosmology

    International Nuclear Information System (INIS)

    Adabi, Farzin; Karami, Kayoomars; Felegary, Fereshte; Azarmi, Zohre

    2012-01-01

    We study the entropy-corrected version of the holographic dark energy (HDE) model in the framework of modified Friedmann-Robertson-Walker cosmology. We consider a non-flat universe filled with an interacting viscous entropy-corrected HDE (ECHDE) with dark matter. Also included in our model is the case of the variable gravitational constant G. We obtain the equation of state and the deceleration parameters of the interacting viscous ECHDE. Moreover, we reconstruct the potential and the dynamics of the quintessence, tachyon, K-essence and dilaton scalar field models according to the evolutionary behavior of the interacting viscous ECHDE model with time-varying G. (research papers)

  3. Meta-analysis of genome-wide association from genomic prediction models

    Science.gov (United States)

    A limitation of many genome-wide association studies (GWA) in animal breeding is that there are many loci with small effect sizes; thus, larger sample sizes (N) are required to guarantee suitable power of detection. To increase sample size, results from different GWA can be combined in a meta-analys...

  4. Wide speed range sensorless control of PM-RSM via "active flux model"

    DEFF Research Database (Denmark)

    Paicu, Mihaela Codruta; Tutelea, Lucian; Andreescu, Gheorghe-Daniel

    2009-01-01

    This paper presents two improved control strategies for the sensorless control of permanent magnet reluctance synchronous motor (PM-RSM) in wide speed range. The first control strategy is a novel torque referencing strategy, which includes a reference torque calculator for maximum torque/ampere b...

  5. Adaptation and inhibition underlie responses to time-varying interaural phase cues in a model of inferior colliculus neurons.

    Science.gov (United States)

    Borisyuk, Alla; Semple, Malcolm N; Rinzel, John

    2002-10-01

    A mathematical model was developed for exploring the sensitivity of low-frequency inferior colliculus (IC) neurons to interaural phase disparity (IPD). The formulation involves a firing-rate-type model that does not include spikes per se. The model IC neuron receives IPD-tuned excitatory and inhibitory inputs (viewed as the output of a collection of cells in the medial superior olive). The model cell possesses cellular properties of firing rate adaptation and postinhibitory rebound (PIR). The descriptions of these mechanisms are biophysically reasonable, but only semi-quantitative. We seek to explain within a minimal model the experimentally observed mismatch between responses to IPD stimuli delivered dynamically and those delivered statically (McAlpine et al. 2000; Spitzer and Semple 1993). The model reproduces many features of the responses to static IPD presentations, binaural beat, and partial range sweep stimuli. These features include differences in responses to a stimulus presented in static or dynamic context: sharper tuning and phase shifts in response to binaural beats, and hysteresis and "rise-from-nowhere" in response to partial range sweeps. Our results suggest that dynamic response features are due to the structure of inputs and the presence of firing rate adaptation and PIR mechanism in IC cells, but do not depend on a specific biophysical mechanism. We demonstrate how the model's various components contribute to shaping the observed phenomena. For example, adaptation, PIR, and transmission delay shape phase advances and delays in responses to binaural beats, adaptation and PIR shape hysteresis in different ranges of IPD, and tuned inhibition underlies asymmetry in dynamic tuning properties. We also suggest experiments to test our modeling predictions: in vitro simulation of the binaural beat (phase advance at low beat frequencies, its dependence on firing rate), in vivo partial range sweep experiments (dependence of the hysteresis curve on

  6. Hydrological application of the INCA model with varying spatial resolution and nitrogen dynamics in a northern river basin

    Directory of Open Access Journals (Sweden)

    K. Rankinen

    2002-01-01

    Full Text Available As a first step in applying the Integrated Nitrogen model for CAtchments (INCA to the Simojoki river basin (3160 km2, this paper focuses on calibration of the hydrological part of the model and nitrogen (N dynamics in the river during the 1980s and 1990s. The model application utilised the GIS land-use and forest classification of Finland together with a recent forest inventory based on remote sensing. In the INCA model, the Hydrologically Effective Rainfall (HER is used to drive the water flow and N fluxes through the catchment system. HER was derived from the Watershed Simulation and Forecast System (WSFS. The basic component of the WSFS is a conceptual hydrological model which simulates runoff using precipitation, potential evapotranspiration and temperature data as inputs. Spatially uniform, lumped input data were calculated for the whole river basin and spatially semi-distributed input data were calculated for each of the nine sub-basins. When comparing discharges simulated by the INCA model with observed values, a better fit was obtained with the semi-distributed data than with the spatially uniform data (R2 0.78 v. 0.70 at Hosionkoski and 0.88 v. 0.78 at the river outlet. The timing of flow peaks was simulated rather well with both approaches, although the semi-distributed input data gave a more realistic simulation of low flow periods and the magnitude of spring flow peaks. The river basin has a relatively closed N cycle with low input and output fluxes of inorganic N. During 1982-2000, the average total N flux to the sea was 715 tonnes yr–1, of which 6% was NH4-N, 14% NO3-N, and 80% organic N. Annual variation in river flow and the concentrations of major N fractions in river water, and factors affecting this variation are discussed. Keywords: northern river basin, nitrogen, forest management, hydrology, dynamic modelling, semi-distributed modelling

  7. Iterative usage of fixed and random effect models for powerful and efficient genome-wide association studies

    Science.gov (United States)

    False positives in a Genome-Wide Association Study (GWAS) can be effectively controlled by a fixed effect and random effect Mixed Linear Model (MLM) that incorporates population structure and kinship among individuals to adjust association tests on markers; however, the adjustment also compromises t...

  8. Transient Inverse Calibration of Hanford Site-Wide Groundwater Model to Hanford Operational Impacts - 1943 to 1996

    Energy Technology Data Exchange (ETDEWEB)

    Cole, Charles R.; Bergeron, Marcel P.; Wurstner, Signe K.; Thorne, Paul D.; Orr, Samuel; Mckinley, Mathew I.

    2001-05-31

    This report describes a new initiative to strengthen the technical defensibility of predictions made with the Hanford site-wide groundwater flow and transport model. The focus is on characterizing major uncertainties in the current model. PNNL will develop and implement a calibration approach and methodology that can be used to evaluate alternative conceptual models of the Hanford aquifer system. The calibration process will involve a three-dimensional transient inverse calibration of each numerical model to historical observations of hydraulic and water quality impacts to the unconfined aquifer system from Hanford operations since the mid-1940s.

  9. Noncognitive Factors in an Elementary School-Wide Arts Integrated Model

    OpenAIRE

    Simpson Steele, Jamie

    2016-01-01

    Pomaika‘i Elementary School has answered a call to improve education by providing content instruction through the arts. How does school wide arts integration in an elementary setting support students as they transition to middle school? This bounded case study examines the experiences of eight families through a series of interviews with students, parents, and teachers. It describes and explains learning through the arts within three overarching noncognitive factors: a) academic mindsets, or ...

  10. A model to increase rehabilitation adherence to home exercise programmes in patients with varying levels of self-efficacy.

    Science.gov (United States)

    Picha, Kelsey J; Howell, Dana M

    2018-03-01

    Patient adherence to rehabilitation programmes is frequently low - particularly adherence to home exercise programmes. Home exercise programmes have been identified as complementary to clinic-based physical therapy in an orthopaedic setting. Barriers to patient adherence have previously been identified within the literature. Low self-efficacy is a barrier to adherence that clinicians have the ability to have an impact on and improve. The theory of self-efficacy is defined as a person's confidence in their ability to perform a task. This theory examines the ability of a person to change through exerting control over inner processes of goal setting, self-monitoring, feedback, problem solving and self-evaluation. If clinicians are able to identify patients with low self-efficacy prior to the prescription of a home exercise programme, adjustments to individualized care can be implemented. Individualized care based on improving self-efficacy for home exercise programmes may improve patient adherence to these programmes. The purpose of this article was to use the theory of self-efficacy to direct clinicians in providing individualized programmes to patients with varying levels of self-efficacy. Copyright © 2017 John Wiley & Sons, Ltd.

  11. Assessment on Time-Varying Thermal Loading of Engineering Structures Based on a New Solar Radiation Model

    Directory of Open Access Journals (Sweden)

    Bo Chen

    2014-01-01

    Full Text Available This paper aims to carry out the condition assessment on solar radiation model and thermal loading of bridges. A modification factor is developed to change the distribution of solar intensities during a whole day. In addition, a new solar radiation model for civil engineering structures is proposed to consider the shelter effects induced by cloud, mountains, and surrounding structures. The heat transfer analysis of bridge components is conducted to calculate the temperature distributions based on the proposed new solar radiation model. By assuming that the temperature along the bridge longitudinal direction is constant, one typical bridge segment is specially studied. Fine finite element models of deck plates and corrugate sheets are constructed to examine the temperature distributions and thermal loading of bridge components. The feasibility and validity of the proposed solar radiation model are investigated through detailed numerical simulation and parametric study. The numerical results are compared with the field measurement data obtained from the long-term monitoring system of the bridge and they shows a very good agreement in terms of temperature distribution in different time instants and in different seasons. The real application verifies effectiveness and validity of the proposed solar radiation and heat transfer analysis.

  12. Comparison of physically based constitutive models characterizing armor steel over wide temperature and strain rate ranges

    International Nuclear Information System (INIS)

    Xu, Zejian; Huang, Fenglei

    2012-01-01

    Both descriptive and predictive capabilities of five physically based constitutive models (PB, NNL, ZA, VA, and RK) are investigated and compared systematically, in characterizing plastic behavior of the 603 steel at temperatures ranging from 288 to 873 K, and strain rates ranging from 0.001 to 4500 s −1 . Determination of the constitutive parameters is introduced in detail for each model. Validities of the established models are checked by strain rate jump tests performed under different loading conditions. The results show that the RK and NNL models have better performance in the description of material behavior, especially the work-hardening effect, while the PB and VA models predict better. The inconsistency that is observed between the capabilities of description and prediction of the models indicates the existence of the minimum number of required fitting data, reflecting the degree of a model's requirement for basic data in parameter calibration. It is also found that the description capability of a model is dependent to a large extent on both its form and the number of its constitutive parameters, while the precision of prediction relies largely on the performance of description. In the selection of constitutive models, the experimental data and the constitutive models should be considered synthetically to obtain a better efficiency in material behavior characterization

  13. Comparison of physically based constitutive models characterizing armor steel over wide temperature and strain rate ranges

    Science.gov (United States)

    Xu, Zejian; Huang, Fenglei

    2012-01-01

    Both descriptive and predictive capabilities of five physically based constitutive models (PB, NNL, ZA, VA, and RK) are investigated and compared systematically, in characterizing plastic behavior of the 603 steel at temperatures ranging from 288 to 873 K, and strain rates ranging from 0.001 to 4500 s-1. Determination of the constitutive parameters is introduced in detail for each model. Validities of the established models are checked by strain rate jump tests performed under different loading conditions. The results show that the RK and NNL models have better performance in the description of material behavior, especially the work-hardening effect, while the PB and VA models predict better. The inconsistency that is observed between the capabilities of description and prediction of the models indicates the existence of the minimum number of required fitting data, reflecting the degree of a model's requirement for basic data in parameter calibration. It is also found that the description capability of a model is dependent to a large extent on both its form and the number of its constitutive parameters, while the precision of prediction relies largely on the performance of description. In the selection of constitutive models, the experimental data and the constitutive models should be considered synthetically to obtain a better efficiency in material behavior characterization.

  14. Interactions in heated milk model systems with different ratios of nanoparticulated whey protein at varying pH

    DEFF Research Database (Denmark)

    Liu, Guanchen; Jæger, Tanja C.; Nielsen, Søren B.

    2017-01-01

    To better understand the interactions between nanoparticulated whey protein (NWP) and other milk proteins during acidification, milk model systems were diluted to 0.5% protein concentration and adjusted to pH of 6.0-4.5 following homogenisation and heat treatment. The diluted systems with different...

  15. Model versus Military Pilot: A Mixed-Methods Study of Adolescents' Attitudes toward Women in Varied Occupations

    Science.gov (United States)

    Daniels, Elizabeth A.; Sherman, Aurora M.

    2016-01-01

    Using an experimental methodology, the present study investigated adolescents' attitudes toward media images of women in non-appearance-focused (CEO and military pilot) and appearance-focused occupations (model and actor). One hundred adolescent girls and 76 adolescent boys provided ratings of likability, competence, and similarity to self after…

  16. Hydrologic characterization of desert soils with varying degrees of pedogenesis: 2. Inverse modeling for eff ective properties

    Science.gov (United States)

    Mirus, B.B.; Perkins, K.S.; Nimmo, J.R.; Singha, K.

    2009-01-01

    To understand their relation to pedogenic development, soil hydraulic properties in the Mojave Desert were investi- gated for three deposit types: (i) recently deposited sediments in an active wash, (ii) a soil of early Holocene age, and (iii) a highly developed soil of late Pleistocene age. Eff ective parameter values were estimated for a simplifi ed model based on Richards' equation using a fl ow simulator (VS2D), an inverse algorithm (UCODE-2005), and matric pressure and water content data from three ponded infi ltration experiments. The inverse problem framework was designed to account for the eff ects of subsurface lateral spreading of infi ltrated water. Although none of the inverse problems converged on a unique, best-fi t parameter set, a minimum standard error of regression was reached for each deposit type. Parameter sets from the numerous inversions that reached the minimum error were used to develop probability distribu tions for each parameter and deposit type. Electrical resistance imaging obtained for two of the three infi ltration experiments was used to independently test fl ow model performance. Simulations for the active wash and Holocene soil successfully depicted the lateral and vertical fl uxes. Simulations of the more pedogenically developed Pleistocene soil did not adequately replicate the observed fl ow processes, which would require a more complex conceptual model to include smaller scale heterogeneities. The inverse-modeling results, however, indicate that with increasing age, the steep slope of the soil water retention curve shitis toward more negative matric pressures. Assigning eff ective soil hydraulic properties based on soil age provides a promising framework for future development of regional-scale models of soil moisture dynamics in arid environments for land-management applications. ?? Soil Science Society of America.

  17. Regionally Varying Assessments of Tropical Width in Reanalyses and CMIP5 Models Using a Tropopause Break Metric

    Science.gov (United States)

    Homeyer, C. R.; Martin, E. R.; McKinzie, R.; McCarthy, K.

    2017-12-01

    The boundary between the tropics and the extratropics in each hemisphere is not fixed in space or time. Variations in the north-south width of the tropics are directly connected to changes in weather and climate. These fluctuations have been shown to impact tropical biodiversity, the spread of vector borne diseases, atmospheric chemistry, and additional natural and human sectors. However, there is no unanimous definition of the tropical boundary. This has led to a disagreement on the magnitude of changes in the tropical width during the past 30 years and a lack of understanding concerning its spatial and temporal variability. This study identifies the variability of the tropical width in modern reanalyses (ERA-Interim, JRA-55, CFSR, MERRA, and MERRA-2) and CMIP5 models (all models with available 6-hourly output) using a novel analysis metric: the tropopause "break" (i.e., the sharp discontinuity in tropopause altitude between the tropics and extratropics). Similarities and differences are found amongst the reanalyses, with some degree of tropical narrowing in the Eastern Pacific between 1981 and 2010. Historical simulations from the CMIP5 models agree well with the tropopause break latitudes depicted by the reanalyses, with considerable differences in estimated trends over the relatively short overlapping time period of the datasets. For future projections under the RCP8.5 scenario from 2006 to 2100, CMIP5 models generally show statistically significant increases in tropical width (at the 99% level) throughout each hemisphere, with regional variability of 1-2 degrees in poleward latitude trends. The impact of CMIP5 model grid resolution and other factors on the results of the tropopause break analysis will be discussed.

  18. Viminaria juncea does not vary its shoot phosphorus concentration and only marginally decreases its mycorrhizal colonization and cluster-root dry weight under a wide range of phosphorus supplies.

    Science.gov (United States)

    de Campos, Mariana C R; Pearse, Stuart J; Oliveira, Rafael S; Lambers, Hans

    2013-05-01

    The Australian legume species Viminaria juncea forms both cluster roots and mycorrhizal associations. The aim of this study was to identify if these root specializations are expressed at differential supplies of phosphorus (P) and at different shoot P concentrations [P]. Seedlings were planted in sand and provided with a mycorrhizal inoculum and basal nutrients plus one of 21 P treatments, ranging from 0 to 50 mg P kg(-1) dry soil. Plants were harvested after 12 weeks, and roots, shoots and cluster roots were measured for length and fresh and dry weight. The number of cluster roots, the percentage of mycorrhizal colonization, and shoot [P] were determined. Shoot biomass accumulation increased with increasing P supply until a shoot dry weight of 3 g was reached at a P supply of approx. 27·5 mg P kg(-1) dry soil. Neither cluster-root formation nor mycorrhizal colonization was fully suppressed at the highest P supply. Most intriguingly, shoot [P] did not differ across treatments, with an average of 1·4 mg P kg(-1) shoot dry weight. The almost constant shoot [P] in V. juncea over the very wide range of P supplies is, to our knowledge, unprecedented. To maintain these stable values, this species down-regulates its growth rate when no P is supplied; conversely, it down-regulates its P-uptake capacity very tightly at the highest P supplies, when its maximum growth rate has been reached. It is proposed that the persistence of cluster roots and mycorrhizal colonization up to the highest P treatments is a consequence of its tightly controlled shoot [P]. This unusual P physiology of V. juncea is surmised to be related to the habitat of this N2-fixing species. Water and nutrients are available at a low but steady supply for most of the year, negating the need for storage of P which would be metabolically costly and be at the expense of metabolic energy and P available for symbiotic N2 fixation.

  19. Wide Temperature Range Kinetics of Elementary Combustion Reactions for Army Models

    National Research Council Canada - National Science Library

    Fontijn, Arthur

    2002-01-01

    The goals of this program are to provide accurate kinetic data on isolated elementary reactions at temperatures relevant to Army combustion models, particularly for propellant combustion dark zones...

  20. Multi-Species Models of Time-Varying Catchability in the U.S. Gulf of Mexico

    OpenAIRE

    Thorson, James Turner

    2009-01-01

    The catchability coefficient is used in most marine stock assessment models, and is usually assumed to be stationary and density-independent. However, recent research has shown that these assumptions are violated in most fisheries. Violation of these assumptions will cause underestimation of stock declines or recoveries, leading to inappropriate management policies. This project assesses the soundness of stationarity and density independence assumptions using multi-species data for seven s...

  1. Effects of spatial and spectral frequencies on wide-field functional imaging (wifi) characterization of preclinical breast cancer models

    Science.gov (United States)

    Moy, Austin; Kim, Jae G.; Lee, Eva Y. H. P.; Choi, Bernard

    2010-02-01

    A common strategy to study breast cancer is the use of the preclinical model. These models provide a physiologically relevant and controlled environment in which to study both response to novel treatments and the biology of the cancer. Preclinical models, including the spontaneous tumor model and mammary window chamber model, are very amenable to optical imaging and to this end, we have developed a wide-field functional imaging (WiFI) instrument that is perfectly suited to studying tumor metabolism in preclinical models. WiFI combines two optical imaging modalities, spatial frequency domain imaging (SFDI) and laser speckle imaging (LSI). Our current WiFI imaging protocol consists of multispectral imaging in the near infrared (650-980 nm) spectrum, over a wide (7 cm x 5 cm) field of view. Using SFDI, the spatially-resolved reflectance of sinusoidal patterns projected onto the tissue is assessed, and optical properties of the tissue are determined, which are then used to extract tissue chromophore concentrations in the form of oxy-, deoxy-, and total hemoglobin concentrations, and percentage of lipid and water. In the current study, we employ Monte Carlo simulations of SFDI light propagation in order to characterize the penetration depth of light in both the spontaneous tumor model and mammary window chamber model. Preliminary results suggest that different spatial frequency and wavelength combinations have different penetration depths, suggesting the potential depth sectioning capability of the SFDI component of WiFI.

  2. Varying coefficient function models to explore interactions between maternal nutritional status and prenatal methylmercury toxicity in the Seychelles Child Development Nutrition Study

    Energy Technology Data Exchange (ETDEWEB)

    Lynch, Miranda L., E-mail: Miranda_Lynch@urmc.rochester.edu [University of Rochester School of Medicine and Dentistry, Rochester, NY 14642 (United States); Huang, Li-Shan [University of Rochester School of Medicine and Dentistry, Rochester, NY 14642 (United States); Cox, Christopher [Johns Hopkins Bloomberg School of Public Health, Baltimore, MD (United States); Strain, J.J. [University of Ulster, Coleraine, Northern Ireland (United Kingdom); Myers, Gary J. [University of Rochester School of Medicine and Dentistry, Rochester, NY 14642 (United States); Bonham, Maxine P. [University of Ulster, Coleraine, Northern Ireland (United Kingdom); Shamlaye, Conrad F. [Ministry of Health, Republic of Seychelles (Seychelles); Stokes-Riner, Abbie [University of Rochester School of Medicine and Dentistry, Rochester, NY 14642 (United States); Wallace, Julie M.W.; Duffy, Emeir M. [University of Ulster, Coleraine, Northern Ireland (United Kingdom); Clarkson, Thomas W.; Davidson, Philip W. [University of Rochester School of Medicine and Dentistry, Rochester, NY 14642 (United States)

    2011-01-15

    Maternal consumption of fish during the gestational period exposes the fetus to both nutrients, especially the long-chain polyunsaturated fatty acids (LCPUFAs), believed to be beneficial for fetal brain development, as well as to the neurotoxicant methylmercury (MeHg). We recently reported that nutrients present in fish may modify MeHg neurotoxicity. Understanding the apparent interaction of MeHg exposure and nutrients present in fish is complicated by the limitations of modeling methods. In this study we fit varying coefficient function models to data from the Seychelles Child Development Nutrition Study (SCDNS) cohort to assess the association of dietary nutrients and children's development. This cohort of mother-child pairs in the Republic of Seychelles had fish consumption averaging 9 meals per week. Maternal nutritional status was assessed for five different nutritional components known to be present in fish (n-3 LCPUFA, n-6 LCPUFA, iron status, iodine status, and choline) and associated with children's neurological development. We also included prenatal MeHg exposure (measured in maternal hair). We examined two child neurodevelopmental outcomes (Bayley Scales Infant Development-II (BSID-II) Mental Developmental Index (MDI) and Psychomotor Developmental Index (PDI)), each administered at 9 and at 30 months. The varying coefficient models allow the possible interactions between each nutritional component and MeHg to be modeled as a smoothly varying function of MeHg as an effect modifier. Iron, iodine, choline, and n-6 LCPUFA had little or no observable modulation at different MeHg exposures. In contrast the n-3 LCPUFA docosahexaenoic acid (DHA) had beneficial effects on the BSID-II PDI that were reduced or absent at higher MeHg exposures. This study presents a useful modeling method that can be brought to bear on questions involving interactions between covariates, and illustrates the continuing importance of viewing fish consumption during pregnancy

  3. Varying coefficient function models to explore interactions between maternal nutritional status and prenatal methylmercury toxicity in the Seychelles Child Development Nutrition Study

    International Nuclear Information System (INIS)

    Lynch, Miranda L.; Huang, Li-Shan; Cox, Christopher; Strain, J.J.; Myers, Gary J.; Bonham, Maxine P.; Shamlaye, Conrad F.; Stokes-Riner, Abbie; Wallace, Julie M.W.; Duffy, Emeir M.; Clarkson, Thomas W.; Davidson, Philip W.

    2011-01-01

    Maternal consumption of fish during the gestational period exposes the fetus to both nutrients, especially the long-chain polyunsaturated fatty acids (LCPUFAs), believed to be beneficial for fetal brain development, as well as to the neurotoxicant methylmercury (MeHg). We recently reported that nutrients present in fish may modify MeHg neurotoxicity. Understanding the apparent interaction of MeHg exposure and nutrients present in fish is complicated by the limitations of modeling methods. In this study we fit varying coefficient function models to data from the Seychelles Child Development Nutrition Study (SCDNS) cohort to assess the association of dietary nutrients and children's development. This cohort of mother-child pairs in the Republic of Seychelles had fish consumption averaging 9 meals per week. Maternal nutritional status was assessed for five different nutritional components known to be present in fish (n-3 LCPUFA, n-6 LCPUFA, iron status, iodine status, and choline) and associated with children's neurological development. We also included prenatal MeHg exposure (measured in maternal hair). We examined two child neurodevelopmental outcomes (Bayley Scales Infant Development-II (BSID-II) Mental Developmental Index (MDI) and Psychomotor Developmental Index (PDI)), each administered at 9 and at 30 months. The varying coefficient models allow the possible interactions between each nutritional component and MeHg to be modeled as a smoothly varying function of MeHg as an effect modifier. Iron, iodine, choline, and n-6 LCPUFA had little or no observable modulation at different MeHg exposures. In contrast the n-3 LCPUFA docosahexaenoic acid (DHA) had beneficial effects on the BSID-II PDI that were reduced or absent at higher MeHg exposures. This study presents a useful modeling method that can be brought to bear on questions involving interactions between covariates, and illustrates the continuing importance of viewing fish consumption during pregnancy as a case

  4. An Empirical Bayes Mixture Model for Effect Size Distributions in Genome-Wide Association Studies

    DEFF Research Database (Denmark)

    Thompson, Wesley K.; Wang, Yunpeng; Schork, Andrew J.

    2015-01-01

    minimizing discrepancies between the parametric mixture model and resampling-based nonparametric estimates of replication effect sizes and variances. We describe in detail the implications of this model for estimation of the non-null proportion, the probability of replication in de novo samples, the local...... for discovery, and polygenic risk prediction. To this end, previous work has used effect-size models based on various distributions, including the normal and normal mixture distributions, among others. In this paper we propose a scale mixture of two normals model for effect size distributions of genome...... analytically and in simulations. We apply this approach to meta-analysis test statistics from two large GWAS, one for Crohn’s disease (CD) and the other for schizophrenia (SZ). A scale mixture of two normals distribution provides an excellent fit to the SZ nonparametric replication effect size estimates. While...

  5. Output-only modal parameter estimator of linear time-varying structural systems based on vector TAR model and least squares support vector machine

    Science.gov (United States)

    Zhou, Si-Da; Ma, Yuan-Chen; Liu, Li; Kang, Jie; Ma, Zhi-Sai; Yu, Lei

    2018-01-01

    Identification of time-varying modal parameters contributes to the structural health monitoring, fault detection, vibration control, etc. of the operational time-varying structural systems. However, it is a challenging task because there is not more information for the identification of the time-varying systems than that of the time-invariant systems. This paper presents a vector time-dependent autoregressive model and least squares support vector machine based modal parameter estimator for linear time-varying structural systems in case of output-only measurements. To reduce the computational cost, a Wendland's compactly supported radial basis function is used to achieve the sparsity of the Gram matrix. A Gamma-test-based non-parametric approach of selecting the regularization factor is adapted for the proposed estimator to replace the time-consuming n-fold cross validation. A series of numerical examples have illustrated the advantages of the proposed modal parameter estimator on the suppression of the overestimate and the short data. A laboratory experiment has further validated the proposed estimator.

  6. A partial backlogging inventory model for deteriorating items with time-varying demand and holding cost: An interval number approach

    Directory of Open Access Journals (Sweden)

    Debashis Dutta

    2015-10-01

    Full Text Available This paper proposes a differential equation inventory model that incorporates partial backlogging and deterioration. Holding cost and demand rate are time dependent. Shortages are allowed and assumed to be partially backlogged. Two versions are presented, the first one with deterministic values of the parameters and the second one taking into the account the interval uncertainty of the parameters. In the crisp case, Taylor’s series expansion is used, and graphically shown that the cost function is convex. While, in the case of intervals, the interval arithmetic is used and then the problem is transformed into a multi-objective non-linear optimization problem and an interval objective function. To solve this problem, the weighted-sum method is used. The proposed procedure is validated with the help of a numerical example. Sensitivity analysis on various parameters has also been carried out.

  7. Evaluating a biomass resource: The TVA region-wide biomass resource assessment model

    International Nuclear Information System (INIS)

    Downing, M.; Graham, R.L.

    1993-01-01

    Wood is an alterative fuel for electric power generation at coal-fired plants in the Tennessee Valley Authority (TVA) region. Short rotation wood energy crops (SRWC) could provide a source of this woody biomass. However, the economic and supply structures of SRWC markets have not been established. Establishing the likely price and supply of SRWC biomass in a region is a complex task because biomass is not an established commodity as are oil, natural gas and coal. In this study we project the cost and supply of short-rotation woody biomass for the TVA region -- a 276 county area that includes all of Tennessee and portions of 10 contiguous states in the southeastern United States. Projected prices and quantities of SRWC are assumed to be a function of the amount and quality of crop and pasture land available in a region. expected SRWC yields and production costs on differing soils and land types, and the profit that could be obtained from current conventional crop production on these same lands. Results include the supply curve of SRWC biomass that is projected to be available from the entire region, the amount and location of crop and pasture land that would be used, and the conventional agricultural crops that would be displaced as a function of SRWC production. Finally, we show the results of sensitivity analysis on the projected cost and supply of SRWC biomass. In particular, we examine the separate impacts of varying SRWC production yields

  8. Evaluating a biomass resource: The TVA region-wide biomass resource assessment model

    Energy Technology Data Exchange (ETDEWEB)

    Downing, M.; Graham, R.L. [Oak Ridge National Lab., TN (United States)

    1993-12-31

    The economic and supply structures of short rotation woody crop (SRWC) markets have not been established. Establishing the likely price and supply of SRWC biomass in a region is a complex task because biomass is not an established commodity as are oil, natural gas and coal. In this study we project the cost and supply of short-rotation woody biomass for the TVA region -- a 276 county area that includes all of Tennessee and portions of 10 contiguous states in the southeastern United States. Projected prices and quantities of SRWC are assumed to be a function of the amount and quality of crop and pasture land available in a region, expected SRWC yields and production costs on differing soils and land types, and the profit that could be obtained from current conventional crop production on these same lands. Results include the supply curve of SRWC biomass that is projected to be available from the entire region, the amount and location of crop and pasture land that would be used, and the conventional agricultural crops that would be displaced as a function of SRWC production. Finally, we show the results of sensitivity analysis on the projected cost and supply of SRWC biomass. In particular, we examine the separate impacts of varying SRWC production yields.

  9. An Ontology of Quality Initiatives and a Model for Decentralized, Collaborative Quality Management on the (Semantic) World Wide Web

    Science.gov (United States)

    2001-01-01

    This editorial provides a model of how quality initiatives concerned with health information on the World Wide Web may in the future interact with each other. This vision fits into the evolving "Semantic Web" architecture - ie, the prospective that the World Wide Web may evolve from a mess of unstructured, human-readable information sources into a global knowledge base with an additional layer providing richer and more meaningful relationships between resources. One first prerequisite for forming such a "Semantic Web" or "web of trust" among the players active in quality management of health information is that these initiatives make statements about themselves and about each other in a machine-processable language. I present a concrete model on how this collaboration could look, and provide some recommendations on what the role of the World Health Organization (WHO) and other policy makers in this framework could be. PMID:11772549

  10. Development of a Terrestrial Modeling System: The China-wide Demonstration

    Science.gov (United States)

    Duan, Q.; Dai, Y.; Zheng, X.; Ye, A.; Chen, Z.; Shangguang, W.

    2010-12-01

    A terrestrial modeling system (TMS) is being developed at Beijing Normal University. The purposes of TMS are (1) to provide a land surface parameterization scheme fully capable of being coupled with and climate and Earth system models of different scales; (2) to provide a standalone platform for simulation and prediction of land surface processes; and (3) to provide a platform for studying human-Earth system interactions. This system will build on and extend existing capabilities at BNU, including the Common Land Model (CoLM) system, high-resolution atmospheric forcing data sets, high-resolution soil and vegetation data sets, and high-performance computing facilities and software. This presentation describes the system design and demonstrates the initial capabilities of TMS in simulating water and energy fluxes over the continental China for a multi-year period.

  11. Model and simulation of wide-band interaction in free-electron lasers

    CERN Document Server

    Pinhasi, Y; Yahalom, A

    2001-01-01

    A three-dimensional, space-frequency model for simulation of interaction in free-electron lasers (FELs) is presented. The model utilizes an expansion of the total electromagnetic field (radiation and space-charge waves) in terms of transverse eigenmodes of the waveguide, in which the field is excited and propagates. The mutual interaction between the electron beam and the electromagnetic field is fully described by coupled equations, expressing the evolution of mode amplitudes and electron beam dynamics. Based on the three-dimensional model, a numerical particle simulation code was developed. A set of coupled-mode excitation equations, expressed in the frequency domain, are solved self-consistently with the equations of particles motion. Variational numerical methods were used to simulate excitation of backward modes. At present, the code can simulate FELs operation in various modes: spontaneous (shot-noise) and self-amplified spontaneous emission, super-radiance and stimulated emission, all in the non-linear...

  12. Examining wide-arc digital breast tomosynthesis: optimization using a visual-search model observer

    Science.gov (United States)

    Das, Mini; Liang, Zhihua; Gifford, Howard C.

    2015-03-01

    Mathematical model observers are expected to assist in preclinical optimization of image acquisition and reconstruction parameters. A clinically realistic and robust model observer platform could help in multiparameter optimizations without requiring frequent human-observer validations. We are developing search-capable visual-search (VS) model observers with this potential. In this work, we present initial results on optimization of DBT scan angle and the number of projection views for low-contrast mass detection. Comparison with human-observer results shows very good agreement. These results point towards the benefits of using relatively wider arcs and low projection angles per arc degree for improved mass detection. These results are particularly interesting considering that the FDA-approved DBT systems like Hologic Selenia Dimensions uses a narrow (15-degree) acquisition arc and one projection per arc degree.

  13. Estimating the predictive ability of genetic risk models in simulated data based on published results from genome-wide association studies.

    Science.gov (United States)

    Kundu, Suman; Mihaescu, Raluca; Meijer, Catherina M C; Bakker, Rachel; Janssens, A Cecile J W

    2014-01-01

    There is increasing interest in investigating genetic risk models in empirical studies, but such studies are premature when the expected predictive ability of the risk model is low. We assessed how accurately the predictive ability of genetic risk models can be estimated in simulated data that are created based on the odds ratios (ORs) and frequencies of single-nucleotide polymorphisms (SNPs) obtained from genome-wide association studies (GWASs). We aimed to replicate published prediction studies that reported the area under the receiver operating characteristic curve (AUC) as a measure of predictive ability. We searched GWAS articles for all SNPs included in these models and extracted ORs and risk allele frequencies to construct genotypes and disease status for a hypothetical population. Using these hypothetical data, we reconstructed the published genetic risk models and compared their AUC values to those reported in the original articles. The accuracy of the AUC values varied with the method used for the construction of the risk models. When logistic regression analysis was used to construct the genetic risk model, AUC values estimated by the simulation method were similar to the published values with a median absolute difference of 0.02 [range: 0.00, 0.04]. This difference was 0.03 [range: 0.01, 0.06] and 0.05 [range: 0.01, 0.08] for unweighted and weighted risk scores. The predictive ability of genetic risk models can be estimated using simulated data based on results from GWASs. Simulation methods can be useful to estimate the predictive ability in the absence of empirical data and to decide whether empirical investigation of genetic risk models is warranted.

  14. Plant-wide modelling of phosphorus transformations in wastewater treatment systems: Impacts of control and operational strategies

    DEFF Research Database (Denmark)

    Solon, Kimberly; Flores Alsina, Xavier; Kazadi Mbamba, C

    2017-01-01

    The objective of this paper is to report the effects that control/operational strategies may have on plant-wide phosphorus (P) transformations in wastewater treatment plants (WWTP). The development of a new set of biological (activated sludge, anaerobic digestion), physico-chemical (aqueous phase......, precipitation, mass transfer) process models and model interfaces (between water and sludge line) were required to describe the required tri-phasic (gas, liquid, solid) compound transformations and the close interlinks between the P and the sulfur (S) and iron (Fe) cycles. A modified version of the Benchmark...... Simulation Model No. 2 (BSM2) (open loop) is used as test platform upon which three different operational alternatives (A1, A2, A3) are evaluated. Rigorous sensor and actuator models are also included in order to reproduce realistic control actions. Model-based analysis shows that the combination...

  15. Response of tree growth to climatic variation and stand dynamics: Implications for modeling stand dynamics under varying climatic conditions

    Energy Technology Data Exchange (ETDEWEB)

    Graumlich, L.J.; Holmes, R.L. (Univ. of Arizona, Tucson, AZ (United States))

    1994-06-01

    We used tree-ring data to assess the relative importance of regional climate vs. stand-level processes in controlling tree growth for seven forest dominants of the mixed conifer forest of the Sierra Nevada. For each species, increment cores were collected from at least 20 canopy dominants at several sites arrayed along elevational gradients extending from lower to upper elevational limits. Species sampled include ponderosa pine (Pinus ponderosa), Jeffrey pine (P. jeffreyi), sugar pine (P. lambertina), white fir (Abies concolor), red fir (A. magnifica), incense cedar (Calocedrus decurrens), and black oak (Quercus keloggii). Stand-level processes generate low to medium frequency variation in growth that is not held in common among trees within a site or between sites. Stand-level processes are most important for white and red fir and least important for ponderosa pine. Regional climatic variation generates medium to high frequency variation that is coherent among trees of the same species (and often same genera). Results such as these have utility for parameterizing and validating stand simulation models, especially for use in climatic change scenarios.

  16. Numerical modelling on fate and transport of petroleum hydrocarbons in an unsaturated subsurface system for varying source scenario

    Science.gov (United States)

    Berlin, M.; Vasudevan, M.; Kumar, G. Suresh; Nambi, Indumathi M.

    2015-04-01

    The vertical transport of petroleum hydrocarbons from a surface spill through an unsaturated subsurface system is of major concern in assessing the vulnerability of groundwater contamination. A realistic representation on fate and transport of volatile organic compounds at different periods after spill is quite challenging due to the variation in the source behaviour at the surface of spill as well as the variation in the hydrodynamic parameters and the associated inter-phase partitioning coefficients within the subsurface. In the present study, a one dimensional numerical model is developed to simulate the transport of benzene in an unsaturated subsurface system considering the effect of volatilization, dissolution, adsorption and microbial degradation of benzene for (i) constant continuous source, (ii) continuous decaying source, and (iii) residual source. The numerical results suggest that volatilization is the important sink for contaminant removal considering the soil air migration within the unsaturated zone. It is also observed that the coupled effect of dissolution and volatilization is important for the decaying source at the surface immediately after the spill, whereas rate-limited dissolution from residually entrapped source is responsible for the extended contamination towards later period.

  17. Impact Response Comparison Between Parametric Human Models and Postmortem Human Subjects with a Wide Range of Obesity Levels.

    Science.gov (United States)

    Zhang, Kai; Cao, Libo; Wang, Yulong; Hwang, Eunjoo; Reed, Matthew P; Forman, Jason; Hu, Jingwen

    2017-10-01

    Field data analyses have shown that obesity significantly increases the occupant injury risks in motor vehicle crashes, but the injury assessment tools for people with obesity are largely lacking. The objectives of this study were to use a mesh morphing method to rapidly generate parametric finite element models with a wide range of obesity levels and to evaluate their biofidelity against impact tests using postmortem human subjects (PMHS). Frontal crash tests using three PMHS seated in a vehicle rear seat compartment with body mass index (BMI) from 24 to 40 kg/m 2 were selected. To develop the human models matching the PMHS geometry, statistical models of external body shape, rib cage, pelvis, and femur were applied to predict the target geometry using age, sex, stature, and BMI. A mesh morphing method based on radial basis functions was used to rapidly morph a baseline human model into the target geometry. The model-predicted body excursions and injury measures were compared to the PMHS tests. Comparisons of occupant kinematics and injury measures between the tests and simulations showed reasonable correlations across the wide range of BMI levels. The parametric human models have the capability to account for the obesity effects on the occupant impact responses and injury risks. © 2017 The Obesity Society.

  18. Proteome-wide identification of predominant subcellular protein localizations in a bacterial model organism

    Energy Technology Data Exchange (ETDEWEB)

    Stekhoven, Daniel J. [Univ. of Zurich (Switzerland); Omasits, Ulrich [Univ. of Zurich (Switzerland); ETH Zurich (Switzerland); Quebatte, Maxime [Univ. of Basel (Switzerland); Dehio, Christoph [Univ. of Basel (Switzerland); Ahrens, Christian H. [Univ. of Zurich (Switzerland)

    2014-03-01

    Proteomics data provide unique insights into biological systems, including the predominant subcellular localization (SCL) of proteins, which can reveal important clues about their functions. Here we analyzed data of a complete prokaryotic proteome expressed under two conditions mimicking interaction of the emerging pathogen Bartonella henselae with its mammalian host. Normalized spectral count data from cytoplasmic, total membrane, inner and outer membrane fractions allowed us to identify the predominant SCL for 82% of the identified proteins. The spectral count proportion of total membrane versus cytoplasmic fractions indicated the propensity of cytoplasmic proteins to co-fractionate with the inner membrane, and enabled us to distinguish cytoplasmic, peripheral innermembrane and bona fide inner membrane proteins. Principal component analysis and k-nearest neighbor classification training on selected marker proteins or predominantly localized proteins, allowed us to determine an extensive catalog of at least 74 expressed outer membrane proteins, and to extend the SCL assignment to 94% of the identified proteins, including 18% where in silico methods gave no prediction. Suitable experimental proteomics data combined with straightforward computational approaches can thus identify the predominant SCL on a proteome-wide scale. Finally, we present a conceptual approach to identify proteins potentially changing their SCL in a condition-dependent fashion.

  19. Developing land market data for use in a state wide land use and transportation model

    Science.gov (United States)

    1997-10-01

    This working paper describes the process used to develop land market variables : for use by TRANUS in the Transportation and Land Use Model Integration : Program (TLUMIP). One of the key variables developed during this phase of the : project is the m...

  20. European-wide simulations of croplands using an improved terrestrial biosphere model: Phenology and productivity

    Science.gov (United States)

    Smith, P. C.; de Noblet-Ducoudré, N.; Ciais, P.; Peylin, P.; Viovy, N.; Meurdesoif, Y.; Bondeau, A.

    2010-03-01

    Aiming at producing improved estimates of carbon source/sink spatial and interannual patterns across Europe (35% croplands), this work combines the terrestrial biosphere model Organizing Carbon and Hydrology in Dynamic Ecosystems (ORCHIDEE), for vegetation productivity, water balance, and soil carbon dynamics, and the generic crop model Simulateur Multidisciplinaire pour les Cultures Standard (STICS), for phenology, irrigation, nitrogen balance, and harvest. The ORCHIDEE-STICS model, relying on three plant functional types for the representation of temperate agriculture, is evaluated over the last few decades at various spatial and temporal resolutions. The simulated leaf area index seasonal cycle is largely improved relative to the original ORCHIDEE simulating grasslands, and compares favorably with remote-sensing observations (correlation doubles over Europe). Crop yield is derived from annual net primary productivity and compared with wheat and grain maize harvest data for five European countries. Discrepancies between 30 year mean simulated and reported yields are large in Mediterranean countries. Interannual variability amplitude expressed relative to the mean is reduced toward the observed variability (≈10%) when using ORCHIDEE-STICS. Overall, this study highlights the importance of accounting for the specific phenologies of crops sown both in winter and in spring and for irrigation applied to spring crops in regional/global models of the terrestrial carbon cycle. Limitations suggest to account for temporal and spatial variability in agricultural practices for further simulation improvement.

  1. Mass balance-based plant-wide wastewater treatment plant models ...

    African Journals Online (AJOL)

    2006-04-28

    Apr 28, 2006 ... AS activated sludge. ASM1,2,3 Activated Sludge Models No. 1, 2 or 3. BEPR biological excess phosphorus removal. BNR biological nutrient removal ... PS primary sludge. PST primary settling tank. Q flow. R hydraulic retention time or sludge age for anaerobic digester. RBCOD readily biodegradable COD.

  2. Prowess–A Software Model for the Ooty Wide Field Array

    Indian Academy of Sciences (India)

    Although predictions spell out optimistic outcomes in reasonable integration times, these studies were based purely on analytical assumptions, without accounting for limiting systematics. A software model for OWFA has been developed with a view to understanding the instrument-induced systematics, by describing a ...

  3. Prowess – A Software Model for the Ooty Wide Field Array

    Indian Academy of Sciences (India)

    Although predictions spell out optimistic outcomes in reasonable integration times, these studies were based purely on analytical assumptions, without accounting for limiting systematics. A software model for OWFA has been developed with a view to understanding the instrument-induced systematics, by describing a ...

  4. Varied behavioral responses induced by morphine in the tree shrew: a possible model for human opiate addiction

    Directory of Open Access Journals (Sweden)

    Fang eShen

    2014-09-01

    Full Text Available Tree shrews represent a suitable animal model to study the pathogenesis of human diseases as they are phylogenetically close to primates and have a well-developed central nervous system that possesses many homologies with primates. Therefore, in our study, we investigated whether tree shrews can be used to explore the addictive behaviors induced by morphine. Firstly, to investigate the psychoactive effect of morphine on tree shrews’ behavior, the number of jumping and shuttling, which represent the vertical and horizontal locomotor activity respectively, was examined following the injection of different dosage of morphine. Our results showed intramuscular (IM injection of morphine (5 or 10 mg/kg significantly increased the locomotor activity of tree shrews 30-60 min post-injection. Then, using the conditioned place preference/aversion (CPP/CPA paradigm, we found morphine-conditioned tree shrews exhibited place preference in the morphine-paired chamber on the test day. In addition, naloxone-precipitated withdrawal induced place aversion in the chronic morphine-dependent tree shrews. We evaluated the craving for morphine drinking by assessing the break point that reflects the maximum effort animals will expend to get the drug. Our data showed the break point was significantly increased when compared to the baseline on the 1st, 7th and 14th day after the abstinence. Moreover, in the intravenous morphine self-administration experiment, tree shrews conditioned with morphine responded on the active lever significantly more frequently than on the inactive lever after training. These results suggest that tree shrew may be a potential candidate for study the addictive behaviors and the underling neurological mechanisms.

  5. Crops in silico: A community wide multi-scale computational modeling framework of plant canopies

    Science.gov (United States)

    Srinivasan, V.; Christensen, A.; Borkiewic, K.; Yiwen, X.; Ellis, A.; Panneerselvam, B.; Kannan, K.; Shrivastava, S.; Cox, D.; Hart, J.; Marshall-Colon, A.; Long, S.

    2016-12-01

    Current crop models predict a looming gap between supply and demand for primary foodstuffs over the next 100 years. While significant yield increases were achieved in major food crops during the early years of the green revolution, the current rates of yield increases are insufficient to meet future projected food demand. Furthermore, with projected reduction in arable land, decrease in water availability, and increasing impacts of climate change on future food production, innovative technologies are required to sustainably improve crop yield. To meet these challenges, we are developing Crops in silico (Cis), a biologically informed, multi-scale, computational modeling framework that can facilitate whole plant simulations of crop systems. The Cis framework is capable of linking models of gene networks, protein synthesis, metabolic pathways, physiology, growth, and development in order to investigate crop response to different climate scenarios and resource constraints. This modeling framework will provide the mechanistic details to generate testable hypotheses toward accelerating directed breeding and engineering efforts to increase future food security. A primary objective for building such a framework is to create synergy among an inter-connected community of biologists and modelers to create a realistic virtual plant. This framework advantageously casts the detailed mechanistic understanding of individual plant processes across various scales in a common scalable framework that makes use of current advances in high performance and parallel computing. We are currently designing a user friendly interface that will make this tool equally accessible to biologists and computer scientists. Critically, this framework will provide the community with much needed tools for guiding future crop breeding and engineering, understanding the emergent implications of discoveries at the molecular level for whole plant behavior, and improved prediction of plant and ecosystem

  6. Two-stage model for time-varying effects of discrete longitudinal covariates with applications in analysis of daily process data.

    Science.gov (United States)

    Yang, Hanyu; Cranford, James A; Li, Runze; Buu, Anne

    2015-02-20

    This study proposes a generalized time-varying effect model that can be used to characterize a discrete longitudinal covariate process and its time-varying effect on a later outcome that may be discrete. The proposed method can be applied to examine two important research questions for daily process data: measurement reactivity and predictive validity. We demonstrate these applications using health risk behavior data collected from alcoholic couples through an interactive voice response system. The statistical analysis results show that the effect of measurement reactivity may only be evident in the first week of interactive voice response assessment. Moreover, the level of urge to drink before measurement reactivity takes effect may be more predictive of a later depression outcome. Our simulation study shows that the performance of the proposed method improves with larger sample sizes, more time points, and smaller proportions of zeros in the binary longitudinal covariate. Copyright © 2014 John Wiley & Sons, Ltd.

  7. Modeling and control of LCL-filtered grid-tied inverters with wide inductance variation

    DEFF Research Database (Denmark)

    Xie, Chuan; Li, Kai; Zhang, Gang

    2017-01-01

    with the changing of the inductor current in one cycle of the grid, which challenges the system stability and power quality. In this paper, the current-dependent small-signal model of a three-phase LCL-filtered inverter is derived for designing the corresponding controller. Based on the developed small-signal model......, a capacitor current feedback based active damping loop and a fractional order repetitive control based compound current control loop are designed to stabilize the system and enhance the control accuracy in steady-state, respectively. The controller design procedure is given in detail. Finally, all......-digital simulation has been conducted on a 3.7 kVA inverter system to verify the theoretical expectations....

  8. A metabolic system-wide characterisation of the pig: a model for human physiology.

    Science.gov (United States)

    Merrifield, Claire A; Lewis, Marie; Claus, Sandrine P; Beckonert, Olaf P; Dumas, Marc-Emmanuel; Duncker, Swantje; Kochhar, Sunil; Rezzi, Serge; Lindon, John C; Bailey, Mick; Holmes, Elaine; Nicholson, Jeremy K

    2011-09-01

    The pig is a single-stomached omnivorous mammal and is an important model of human disease and nutrition. As such, it is necessary to establish a metabolic framework from which pathology-based variation can be compared. Here, a combination of one and two-dimensional (1)H and (13)C nuclear magnetic resonance spectroscopy (NMR) and high-resolution magic angle spinning (HR-MAS) NMR was used to provide a systems overview of porcine metabolism via characterisation of the urine, serum, liver and kidney metabolomes. The metabolites observed in each of these biological compartments were found to be qualitatively comparable to the metabolic signature of the same biological matrices in humans and rodents. The data were modelled using a combination of principal components analysis and Venn diagram mapping. Urine represented the most metabolically distinct biological compartment studied, with a relatively greater number of NMR detectable metabolites present, many of which are implicated in gut-microbial co-metabolic processes. The major inter-species differences observed were in the phase II conjugation of extra-genomic metabolites; the pig was observed to conjugate p-cresol, a gut microbial metabolite of tyrosine, with glucuronide rather than sulfate as seen in man. These observations are important to note when considering the translatability of experimental data derived from porcine models.

  9. A Conceptual Model for Assessing the Minimum Size Area for an Area-Wide Integrated Pest Management Program

    Directory of Open Access Journals (Sweden)

    Hugh J. Barclay

    2011-01-01

    Full Text Available A conceptual model was developed based on the two basic spatial elements of area-wide integrated pest management (AW-IPM, a core area and a buffer zone, to determine the minimum size of the protected area for the program to be technically feasible and economically justifiable. The model consisted of a biological part (insect dispersal and an economic part. The biological part used random walks and diffusion equations to describe insect dispersal and to determine the minimum width of the buffer zone required to protect the core area from immigration of pests from outside. In the economic part, the size of the core area was calculated to determine the point at which the revenues from the core area equal the control costs. This model will need to be calibrated and validated for each species and geographic location. Tsetse flies and the Mediterranean fruit fly are used as case studies to illustrate the model.

  10. Diagnosis of ulcerative colitis before onset of inflammation by multivariate modeling of genome-wide gene expression data

    DEFF Research Database (Denmark)

    Olsen, Jørgen; Gerds, Thomas A; Seidelin, Jakob B

    2009-01-01

    Background: Endoscopically obtained mucosal biopsies play an important role in the differential diagnosis between ulcerative colitis (UC) and Crohn's disease (CD), but in some cases where neither macroscopic nor microscopic signs of inflammation are present the biopsies provide only inconclusive...... biopsies from 78 patients were included. A diagnostic model was derived with the random forest method based on 71 biopsies from 60 patients. The model-internal out-of-bag performance measure yielded perfect classification. Furthermore, the model was validated in independent 18 noninflamed biopsies from 18...... of random forest modeling of genome-wide gene expression data for distinguishing quiescent and active UC colonic mucosa versus control and CD colonic mucosa.(Inflamm Bowel Dis 2009)....

  11. Gray’s Time-Varying Coefficients Model for Posttransplant Survival of Pediatric Liver Transplant Recipients with a Diagnosis of Cancer

    Directory of Open Access Journals (Sweden)

    Yi Ren

    2013-01-01

    Full Text Available Transplantation is often the only viable treatment for pediatric patients with end-stage liver disease. Making well-informed decisions on when to proceed with transplantation requires accurate predictors of transplant survival. The standard Cox proportional hazards (PH model assumes that covariate effects are time-invariant on right-censored failure time; however, this assumption may not always hold. Gray’s piecewise constant time-varying coefficients (PC-TVC model offers greater flexibility to capture the temporal changes of covariate effects without losing the mathematical simplicity of Cox PH model. In the present work, we examined the Cox PH and Gray PC-TVC models on the posttransplant survival analysis of 288 pediatric liver transplant patients diagnosed with cancer. We obtained potential predictors through univariable (P<0.15 and multivariable models with forward selection (P<0.05 for the Cox PH and Gray PC-TVC models, which coincide. While the Cox PH model provided reasonable average results in estimating covariate effects on posttransplant survival, the Gray model using piecewise constant penalized splines showed more details of how those effects change over time.

  12. Modeling additive and non-additive effects in a hybrid population using genome-wide genotyping: prediction accuracy implications.

    Science.gov (United States)

    Bouvet, J-M; Makouanzi, G; Cros, D; Vigneron, Ph

    2016-02-01

    Hybrids are broadly used in plant breeding and accurate estimation of variance components is crucial for optimizing genetic gain. Genome-wide information may be used to explore models designed to assess the extent of additive and non-additive variance and test their prediction accuracy for the genomic selection. Ten linear mixed models, involving pedigree- and marker-based relationship matrices among parents, were developed to estimate additive (A), dominance (D) and epistatic (AA, AD and DD) effects. Five complementary models, involving the gametic phase to estimate marker-based relationships among hybrid progenies, were developed to assess the same effects. The models were compared using tree height and 3303 single-nucleotide polymorphism markers from 1130 cloned individuals obtained via controlled crosses of 13 Eucalyptus urophylla females with 9 Eucalyptus grandis males. Akaike information criterion (AIC), variance ratios, asymptotic correlation matrices of estimates, goodness-of-fit, prediction accuracy and mean square error (MSE) were used for the comparisons. The variance components and variance ratios differed according to the model. Models with a parent marker-based relationship matrix performed better than those that were pedigree-based, that is, an absence of singularities, lower AIC, higher goodness-of-fit and accuracy and smaller MSE. However, AD and DD variances were estimated with high s.es. Using the same criteria, progeny gametic phase-based models performed better in fitting the observations and predicting genetic values. However, DD variance could not be separated from the dominance variance and null estimates were obtained for AA and AD effects. This study highlighted the advantages of progeny models using genome-wide information.

  13. Honoring Choices Minnesota: preliminary data from a community-wide advance care planning model.

    Science.gov (United States)

    Wilson, Kent S; Kottke, Thomas E; Schettle, Sue

    2014-12-01

    Advance care planning (ACP) increases the likelihood that individuals who are dying receive the care that they prefer. It also reduces depression and anxiety in family members and increases family satisfaction with the process of care. Honoring Choices Minnesota is an ACP program based on the Respecting Choices model of La Crosse, Wisconsin. The objective of this report is to describe the process, which began in 2008, of implementing Honoring Choices Minnesota in a large, diverse metropolitan area. All eight large healthcare systems in the metropolitan area agreed to participate in the project, and as of April 30, 2013, the proportion of hospitalized individuals 65 and older with advance care directives in the electronic medical record was 12.1% to 65.6%. The proportion of outpatients aged 65 and older was 11.6% to 31.7%. Organizations that had sponsored recruitment initiatives had the highest proportions of records containing healthcare directives. It was concluded that it is possible to reduce redundancy by recruiting all healthcare systems in a metropolitan area to endorse the same ACP model, although significantly increasing the proportion of individuals with a healthcare directive in their medical record requires a campaign with recruitment of organizations and individuals. © 2014 The Authors.The Journal of the American Geriatrics Society published by Wiley Periodicals, Inc. on behalf of The American Geriatrics Society.

  14. Integrative genome-wide chromatin signature analysis using finite mixture models.

    Science.gov (United States)

    Taslim, Cenny; Lin, Shili; Huang, Kun; Huang, Tim Hui-Ming

    2012-01-01

    Regulation of gene expression has been shown to involve not only the binding of transcription factor at target gene promoters but also the characterization of histone around which DNA is wrapped around. Some histone modification, for example di-methylated histone H3 at lysine 4 (H3K4me2), has been shown to bind to promoters and activate target genes. However, no clear pattern has been shown to predict human promoters. This paper proposed a novel quantitative approach to characterize patterns of promoter regions and predict novel and alternative promoters. We utilized high-throughput data generated using chromatin immunoprecipitation methods followed by massively parallel sequencing (ChIP-seq) technology on RNA Polymerase II (Pol-II) and H3K4me2. Common patterns of promoter regions are modeled using a mixture model involving double-exponential and uniform distributions. The fitted model obtained were then used to search for regions displaying similar patterns over the entire genome to find novel and alternative promoters. Regions with high correlations with the common patterns are identified as putative novel promoters. We used this proposed algorithm, RNA-seq data and several transcripts databases to find alternative promoters in MCF7 (normal breast cancer) cell line. We found 7,235 high-confidence regions that display the identified promoter patterns. Of these, 4,167 regions (58%) can be mapped to RefSeq regions. 2,444 regions are in a gene body or overlap with transcripts (non-coding RNAs, ESTs, and transcripts that are predicted by RNA-seq data). Some of these maybe potential alternative promoters. We also found 193 regions that map to enhancer regions (represented by androgen and estrogen receptor binding sites) and other regulatory regions such as CTCF (CCCTC binding factor) and CpG island. Around 5% (431 regions) of these correlated regions do not overlap with any transcripts or regulatory regions suggesting that these might be potential new promoters or

  15. World Wide Web Access to Fluid Inclusion Data for Computational Modelling and Simulation

    Science.gov (United States)

    Mernagh, T. P.; Bastrakov, E.; Percival, D.; Girvan, S.; Wyborn, L. A.

    2007-12-01

    Accurate constraints on the chemistry of hydrothermal fluids are critical in our capacity to computationally model and simulate how ore deposits form. To maximize results and subsequent interpretation the fluid inclusion populations should be fully characterized using standardised observational and processing techniques. A Virtual Centre for Geofluids and Thermodynamic Data, which includes the fluid inclusion (FIncs) system, has been established to achieve this. The FIncs system is designed to pull together fluid inclusion data from many individual, often disparate studies. The FIncs database and web applications allow researchers to search and retrieve fluid inclusion data and images via a web browser interface. The database will help standardise the way fluid inclusion data and associated metadata are stored. Furthermore, it follows the principles outlined by the Open Geospatial Consortium (OGC) for the Observation and Measurement application schema. It is tightly coupled to enable formalisation of the observations and measurements made on fluid inclusions, and to standardise how these measurements are processed to achieve consistent constraints for geochemical models. FIncs uses both domain factual knowledge and problem-solving knowledge by providing a choice of models (equations of state) for obtaining additional fluid properties via a web-based calculator, which allows researchers to calculate isochoric T&P values and other chemical and physical properties (e.g. salinity, density, etc.). This method has the benefit of ensuring that all derived data are produced and standardised by a selected set of routines. It also enables data from multiple sources to be quickly reprocessed by new routines as they become available and are added to the database toolkit. The database is being developed as an "open" project, which intends to bring together researchers interested in the properties of geological fluids or fluid inclusions. The ultimate goal of the Virtual Centre

  16. Development of repository-wide radionuclide transport model considering the effects of multiple sources

    International Nuclear Information System (INIS)

    Hatanaka, Koichiro; Watari, Shingo; Ijiri, Yuji

    1999-11-01

    Safety assessment of the geological isolation system according to the groundwater scenario has traditionally been conducted based on the signal canister configuration and then the safety of total system has been evaluated based on the dose rates which were obtained by multiplying the migration rates released from the engineered barrier and/or the natural barrier by dose conversion factors and total number of canisters disposed in the repository. The dose conversion factors can be obtained from the biosphere analysis. In this study, we focused on the effect of multiple sources due to the disposal of canisters at different positions in the repository. By taking the effect of multiple sources into consideration, concentration interference in the repository region is possible to take place. Therefore, radionuclide transport model/code considering the effect of concentration interference due to the multiple sources was developed to make assessments of the effect quantitatively. The newly developed model/code was verified through the comparison analysis with the existing radionuclide transport analysis code used in the second progress report. In addition, the effect of the concentration interference was evaluated by setting a simple problem using the newly developed analysis code. This results shows that the maximum park value of the migration rates from the repository was about two orders of magnitude lower than that based on single canister configuration. Since the analysis code was developed by assuming that all canisters disposed of along the one-dimensional groundwater flow contribute to the concentration interference in the repository region, the assumption should be verified by conducting two or three-dimensional analysis considering heterogeneous geological structure as a future work. (author)

  17. Development of small scale experimental protocol and a multi-physics model to predict the complex hygro-mechanical behavior of wood under varying climates

    Science.gov (United States)

    Lagana, Rastislav

    The reliability of wood structures is strongly affected by duration of loading and environmental conditions. The goal of this study was to develop a simple method for measuring the mechano-sorptive character of the hygro-mechanical behavior of wood and to develop a model capable of predicting long term beam behavior under changing climates. The model predictions were compared with experimental results. Red spruce was the species selected for investigation. The mechano-sorptive properties were measured in tension and compression on thin specimens where moisture content variation within the material was minimal when exposed to a varying environment. The measured mechano-sorptive deformation in compression was significantly greater than that measured in tension (4 times higher at cumulative MC 60% than in tension). However, the developed compression protocol was less accurate, with a tendency to overestimate the magnitude of subsequent experimental creep behavior. A multi-physics model of hygro-mechanical uniaxial beam behavior was developed that rigorously couples spatially varying time-dependent moisture content with the uniaxial stress-strain relations. To verify the model and accuracy of the measured uniaxial mechano-sorptive characteristic of red spruce, the behavior of beams loaded by four point bending was measured in cyclically varying climate over 2.5 months. Although the model did not properly account for the immediate effect of moisture content change on mid-span deflection, as was observed in real beams, the overall trend of the predicted deflection was in good agreement with experimental results. An additional part of the thesis dealt with development of an analytical model to predict the hygro-mechanical behavior of multi-directional polymer matrix composite laminates which incorporate the mechano-sorptive effects of a phenol resorcinol formal-dehyde resin. E-glass/phenol resorcinol formaldehyde resin composite material parameters were used in the model

  18. LXCat: A web-based, community-wide project on data for modeling low temperature plasmas

    Science.gov (United States)

    Pitchford, L. C.

    2014-10-01

    LXCat is an open-access website (www.lxcat.net) for exchanging data related to ion and electron transport and scattering cross sections in cold, neutral gases. At present 30 people from 12 countries have contributed to the LXCat project. This presentation will focus on the status of the data available for electrons on LXCat. These data are primarily in the form of ``complete'' sets of cross sections, compiled or calculated by different contributors, covering a range of energies from thermal up to about 1 keV. The cross section data can be used directly in Monte Carlo simulations and can also be used as input to Boltzmann equation solvers. Solution of the homogeneous, steady-state Boltzmann equation yields electron energy distribution functions (edf) as a function of reduced electric field strength, E/N, integrals over which yield electron transport and rate coefficients. The transport and rate coefficient data are required input for fluid models of low temperature plasmas. Evaluation of the cross section data sets available on LXCat is a key issue. To this end, the LXCat team has been making systematic intercomparisons of cross section data and comparisons of calculated and measured transport and rate coefficients. Our evaluations have been reported previously for noble gases and for common atmospheric gases. The LXCat team is now evaluating data for more complex molecules.

  19. Modeling and Implementation of Omnidirectional Soccer Robot with Wide Vision Scope Applied in Robocup-MSL

    Directory of Open Access Journals (Sweden)

    Mohsen Taheri

    2010-04-01

    Full Text Available The purpose of this paper is to design and implement a middle size soccer robot to conform RoboCup MSL league. First, according to the rules of RoboCup, we design the middle size soccer robot, The proposed autonomous soccer robot consists of the mechanical platform, motion control module, omni-directional vision module, front vision module, image processing and recognition module, investigated target object positioning and real coordinate reconstruction, robot path planning, competition strategies, and obstacle avoidance. And this soccer robot equips the laptop computer system and interface circuits to make decisions. In fact, the omnidirectional vision sensor of the vision system deals with the image processing and positioning for obstacle avoidance and
    target tracking. The boundary-following algorithm (BFA is applied to find the important features of the field. We utilize the sensor data fusion method in the control system parameters, self localization and world modeling. A vision-based self-localization and the conventional odometry
    systems are fused for robust selflocalization. The localization algorithm includes filtering, sharing and integration of the data for different types of objects recognized in the environment. In the control strategies, we present three state modes, which include the Attack Strategy, Defense Strategy and Intercept Strategy. The methods have been tested in the many Robocup competition field middle size robots.

  20. Amyloid Accumulation Drives Proteome-wide Alterations in Mouse Models of Alzheimer's Disease-like Pathology.

    Science.gov (United States)

    Savas, Jeffrey N; Wang, Yi-Zhi; DeNardo, Laura A; Martinez-Bartolome, Salvador; McClatchy, Daniel B; Hark, Timothy J; Shanks, Natalie F; Cozzolino, Kira A; Lavallée-Adam, Mathieu; Smukowski, Samuel N; Park, Sung Kyu; Kelly, Jeffery W; Koo, Edward H; Nakagawa, Terunaga; Masliah, Eliezer; Ghosh, Anirvan; Yates, John R

    2017-11-28

    Amyloid beta (Aβ) peptides impair multiple cellular pathways and play a causative role in Alzheimer's disease (AD) pathology, but how the brain proteome is remodeled by this process is unknown. To identify protein networks associated with AD-like pathology, we performed global quantitative proteomic analysis in three mouse models at young and old ages. Our analysis revealed a robust increase in Apolipoprotein E (ApoE) levels in nearly all brain regions with increased Aβ levels. Taken together with prior findings on ApoE driving Aβ accumulation, this analysis points to a pathological dysregulation of the ApoE-Aβ axis. We also found dysregulation of protein networks involved in excitatory synaptic transmission. Analysis of the AMPA receptor (AMPAR) complex revealed specific loss of TARPγ-2, a key AMPAR-trafficking protein. Expression of TARPγ-2 in hAPP transgenic mice restored AMPA currents. This proteomic database represents a resource for the identification of protein alterations responsible for AD. Copyright © 2017 The Author(s). Published by Elsevier Inc. All rights reserved.

  1. Genome-wide prediction, display and refinement of binding sites with information theory-based models

    Directory of Open Access Journals (Sweden)

    Leeder J Steven

    2003-09-01

    . Conclusions Delila-Genome was used to scan the human genome sequence with information weight matrices of transcription factor binding sites, including PXR/RXRα, AHR and NF-κB p50/p65, and matrices for RNA binding sites including splice donor, acceptor, and SC35 recognition sites. Comparisons of genome scans with the original and refined PXR/RXRα information weight matrices indicate that the refined model more accurately predicts the strengths of known binding sites and is more sensitive for detection of novel binding sites.

  2. Using bioprocess stoichiometry to build a plant-wide mass balance based steady-state WWTP model.

    Science.gov (United States)

    Ekama, G A

    2009-05-01

    Steady-state models are useful for design of wastewater treatment plants (WWTPs) because they allow reactor sizes and interconnecting flows to be simply determined from explicit equations in terms of unit operation performance criteria. Once the overall WWTP scheme is established and the main system defining parameters of the individual unit operations estimated, dynamic models can be applied to the connected unit operations to refine their design and evaluate their performance under dynamic flow and load conditions. To model anaerobic digestion (AD) within plant-wide WWTP models, not only COD and nitrogen (N) but also carbon (C) fluxes entering the AD need to be defined. Current plant-wide models, like benchmark simulation model No 2 (BSM2), impose a C flux at the AD influent. In this paper, the COD and N mass balance steady-state models of activated sludge (AS) organics degradation, nitrification and denitrification (ND) and anaerobic (AD) and aerobic (AerD) digestion of wastewater sludge are extended and linked with bioprocess transformation stoichiometry to form C, H, O, N, chemical oxygen demand (COD) and charge mass balance based models so that also C (and H and O) can be tracked through the whole WWTP. By assigning a stoichiometric composition (x, y, z and a in C(x)H(y)O(z)N(a)) to each of the five main influent wastewater organic fractions and ammonia, these, and the products generated from them via the biological processes, are tracked through the WWTP. The model is applied to two theoretical case study WWTPs treating the same raw wastewater (WW) to the same final sludge residual biodegradable COD. It is demonstrated that much useful information can be generated with the relatively simple steady-state models to aid WWTP layout design and track the different products exiting the WWTP via the solid, liquid and gas streams, such as aerobic versus anaerobic digestion of waste activated sludge, N loads in recycle streams, methane production for energy recovery

  3. Bobcats ( Lynx rufus) as a Model Organism to Investigate the Effects of Roads on Wide-Ranging Carnivores

    Science.gov (United States)

    Litvaitis, John A.; Reed, Gregory C.; Carroll, Rory P.; Litvaitis, Marian K.; Tash, Jeffrey; Mahard, Tyler; Broman, Derek J. A.; Callahan, Catherine; Ellingwood, Mark

    2015-06-01

    We are using bobcats ( Lynx rufus) as a model organism to examine how roads affect the abundance, distribution, and genetic structure of a wide-ranging carnivore. First, we compared the distribution of bobcat-vehicle collisions to road density and then estimated collision probabilities for specific landscapes using a moving window with road-specific traffic volume. Next, we obtained incidental observations of bobcats from the public, camera-trap detections, and locations of bobcats equipped with GPS collars to examine habitat selection. These data were used to generate a cost-surface map to investigate potential barrier effects of roads. Finally, we have begun an examination of genetic structure of bobcat populations in relation to major road networks. Distribution of vehicle-killed bobcats was correlated with road density, especially state and interstate highways. Collision models suggested that some regions may function as demographic sinks. Simulated movements in the context of the cost-surface map indicated that some major roads may be barriers. These patterns were supported by the genetic structure of bobcats. The sharpest divisions among genetically distinct demes occurred along natural barriers (mountains and large lakes) and in road-dense regions. In conclusion, our study has demonstrated the utility of using bobcats as a model organism to understand the variety of threats that roads pose to a wide-ranging species. Bobcats may also be useful as one of a group of focal species while developing approaches to maintain existing connectivity or mitigate the negative effects of roads.

  4. Transient Inverse Calibration of Site-Wide Groundwater Model to Hanford Operational Impacts from 1943 to 1996--Alternative Conceptual Model Considering Interaction with Uppermost Basalt Confined Aquifer

    Energy Technology Data Exchange (ETDEWEB)

    Vermeul, Vincent R.; Cole, Charles R.; Bergeron, Marcel P.; Thorne, Paul D.; Wurstner, Signe K.

    2001-08-29

    The baseline three-dimensional transient inverse model for the estimation of site-wide scale flow parameters, including their uncertainties, using data on the transient behavior of the unconfined aquifer system over the entire historical period of Hanford operations, has been modified to account for the effects of basalt intercommunication between the Hanford unconfined aquifer and the underlying upper basalt confined aquifer. Both the baseline and alternative conceptual models (ACM-1) considered only the groundwater flow component and corresponding observational data in the 3-Dl transient inverse calibration efforts. Subsequent efforts will examine both groundwater flow and transport. Comparisons of goodness of fit measures and parameter estimation results for the ACM-1 transient inverse calibrated model with those from previous site-wide groundwater modeling efforts illustrate that the new 3-D transient inverse model approach will strengthen the technical defensibility of the final model(s) and provide the ability to incorporate uncertainty in predictions related to both conceptual model and parameter uncertainty. These results, however, indicate that additional improvements are required to the conceptual model framework. An investigation was initiated at the end of this basalt inverse modeling effort to determine whether facies-based zonation would improve specific yield parameter estimation results (ACM-2). A description of the justification and methodology to develop this zonation is discussed.

  5. [The effect of betahistine on histological changes in rabbit brain in model of whole body wide-frequency vibration].

    Science.gov (United States)

    Shimkus, Iu Iu; Sapegin, I D

    2013-01-01

    In acute experiments in conscious rabbits was studied protective action of selective blocker of histamine H3-receptor betahistine (2mg/kg i/v) against histological changes in precentral and postcentral gyrus, as well as in temporal lobe of cerebral cortex, thalamus, hypothalamus, and cerebellum, arising in case of modeling of whole body wide-frequency vibration. Betahistine attenuates edematous and degenerative changes in neurons and reciprocal glial reaction, caused by vibration, but does not eliminate edema in perivascular spaces. This effect may be related to the improvement of blood supply as a result of of vasodilatory action and decrease of oxygen consumption via vestibuloprotective effect.

  6. Iterative Usage of Fixed and Random Effect Models for Powerful and Efficient Genome-Wide Association Studies

    Science.gov (United States)

    Liu, Xiaolei; Huang, Meng; Fan, Bin; Buckler, Edward S.; Zhang, Zhiwu

    2016-01-01

    False positives in a Genome-Wide Association Study (GWAS) can be effectively controlled by a fixed effect and random effect Mixed Linear Model (MLM) that incorporates population structure and kinship among individuals to adjust association tests on markers; however, the adjustment also compromises true positives. The modified MLM method, Multiple Loci Linear Mixed Model (MLMM), incorporates multiple markers simultaneously as covariates in a stepwise MLM to partially remove the confounding between testing markers and kinship. To completely eliminate the confounding, we divided MLMM into two parts: Fixed Effect Model (FEM) and a Random Effect Model (REM) and use them iteratively. FEM contains testing markers, one at a time, and multiple associated markers as covariates to control false positives. To avoid model over-fitting problem in FEM, the associated markers are estimated in REM by using them to define kinship. The P values of testing markers and the associated markers are unified at each iteration. We named the new method as Fixed and random model Circulating Probability Unification (FarmCPU). Both real and simulated data analyses demonstrated that FarmCPU improves statistical power compared to current methods. Additional benefits include an efficient computing time that is linear to both number of individuals and number of markers. Now, a dataset with half million individuals and half million markers can be analyzed within three days. PMID:26828793

  7. Modeling Hysteresis with Inertial-Dependent Prandtl-Ishlinskii Model in Wide-Band Frequency-Operated Piezoelectric Actuator

    Directory of Open Access Journals (Sweden)

    Vahid Hassani

    2012-01-01

    Full Text Available One of the major problems occurring in many technical applications is the presence of the hysteretic behavior in sensors and actuators, which causes a nonlinear relationship between input and output variables in such devices. Since the nonlinear phenomenon of hysteresis degrades the performance of the piezoelectric materials and piezoelectric drive mechanisms, for example, in positioning control framework, it has to be characterized in order to mitigate the effect of the nonlinearity in the devices. This paper is aimed to characterize and model the hysteresis in typical piezoelectric actuators under load-free and preloaded circumstances incorporating the inertial effect of the system. For this purpose, the piezoelectric actuator is modeled as a mass-spring-damper system, which is expressed in terms of a stop operator as one of the essential yet efficient hysteresis operators in the Prandtl-Ishlinskii (PI model. The reason of utilizing the stop operator in this study is for the sake of control purposes, as the stop operator plays as the inverse of the play operator in the PI model and can be used in a feed-forward controller scheme to suppress the effect of hysteresis in general control framework. The results reveal that this model exhibits better correspondence to the measurement output compared to that of the classical PI model.

  8. Methodological comparison of marginal structural model, time-varying Cox regression, and propensity score methods: the example of antidepressant use and the risk of hip fracture.

    Science.gov (United States)

    Ali, M Sanni; Groenwold, Rolf H H; Belitser, Svetlana V; Souverein, Patrick C; Martín, Elisa; Gatto, Nicolle M; Huerta, Consuelo; Gardarsdottir, Helga; Roes, Kit C B; Hoes, Arno W; de Boer, Antonius; Klungel, Olaf H

    2016-03-01

    Observational studies including time-varying treatments are prone to confounding. We compared time-varying Cox regression analysis, propensity score (PS) methods, and marginal structural models (MSMs) in a study of antidepressant [selective serotonin reuptake inhibitors (SSRIs)] use and the risk of hip fracture. A cohort of patients with a first prescription for antidepressants (SSRI or tricyclic antidepressants) was extracted from the Dutch Mondriaan and Spanish Base de datos para la Investigación Farmacoepidemiológica en Atención Primaria (BIFAP) general practice databases for the period 2001-2009. The net (total) effect of SSRI versus no SSRI on the risk of hip fracture was estimated using time-varying Cox regression, stratification and covariate adjustment using the PS, and MSM. In MSM, censoring was accounted for by inverse probability of censoring weights. The crude hazard ratio (HR) of SSRI use versus no SSRI use on hip fracture was 1.75 (95%CI: 1.12, 2.72) in Mondriaan and 2.09 (1.89, 2.32) in BIFAP. After confounding adjustment using time-varying Cox regression, stratification, and covariate adjustment using the PS, HRs increased in Mondriaan [2.59 (1.63, 4.12), 2.64 (1.63, 4.25), and 2.82 (1.63, 4.25), respectively] and decreased in BIFAP [1.56 (1.40, 1.73), 1.54 (1.39, 1.71), and 1.61 (1.45, 1.78), respectively]. MSMs with stabilized weights yielded HR 2.15 (1.30, 3.55) in Mondriaan and 1.63 (1.28, 2.07) in BIFAP when accounting for censoring and 2.13 (1.32, 3.45) in Mondriaan and 1.66 (1.30, 2.12) in BIFAP without accounting for censoring. In this empirical study, differences between the different methods to control for time-dependent confounding were small. The observed differences in treatment effect estimates between the databases are likely attributable to different confounding information in the datasets, illustrating that adequate information on (time-varying) confounding is crucial to prevent bias. Copyright © 2016 John Wiley & Sons, Ltd.

  9. Mathematical Modeling of Avidity Distribution and Estimating General Binding Properties of Transcription Factors from Genome-Wide Binding Profiles.

    Science.gov (United States)

    Kuznetsov, Vladimir A

    2017-01-01

    The shape of the experimental frequency distributions (EFD) of diverse molecular interaction events quantifying genome-wide binding is often skewed to the rare but abundant quantities. Such distributions are systematically deviated from standard power-law functions proposed by scale-free network models suggesting that more explanatory and predictive probabilistic model(s) are needed. Identification of the mechanism-based data-driven statistical distributions that provide an estimation and prediction of binding properties of transcription factors from genome-wide binding profiles is the goal of this analytical survey. Here, we review and develop an analytical framework for modeling, analysis, and prediction of transcription factor (TF) DNA binding properties detected at the genome scale. We introduce a mixture probabilistic model of binding avidity function that includes nonspecific and specific binding events. A method for decomposition of specific and nonspecific TF-DNA binding events is proposed. We show that the Kolmogorov-Waring (KW) probability function (PF), modeling the steady state TF binding-dissociation stochastic process, fits well with the EFD for diverse TF-DNA binding datasets. Furthermore, this distribution predicts total number of TF-DNA binding sites (BSs), estimating specificity and sensitivity as well as other basic statistical features of DNA-TF binding when the experimental datasets are noise-rich and essentially incomplete. The KW distribution fits equally well to TF-DNA binding activity for different TFs including ERE, CREB, STAT1, Nanog, and Oct4. Our analysis reveals that the KW distribution and its generalized form provides the family of power-law-like distributions given in terms of hypergeometric series functions, including standard and generalized Pareto and Waring distributions, providing flexible and common skewed forms of the transcription factor binding site (TFBS) avidity distribution function. We suggest that the skewed binding

  10. Binding enthalpy calculations for a neutral host-guest pair yield widely divergent salt effects across water models.

    Science.gov (United States)

    Gao, Kaifu; Yin, Jian; Henriksen, Niel M; Fenley, Andrew T; Gilson, Michael K

    2015-10-13

    Dissolved salts are a part of the physiological milieu and can significantly influence the kinetics and thermodynamics of various biomolecular processes, such as binding and catalysis; thus, it is important for molecular simulations to reliably describe their effects. The present study uses a simple, nonionized host-guest model system to study the sensitivity of computed binding enthalpies to the choice of water and salt models. Molecular dynamics simulations of a cucurbit[7]uril host with a neutral guest molecule show striking differences in the salt dependency of the binding enthalpy across four water models, TIP3P, SPC/E, TIP4P-Ew, and OPC, with additional sensitivity to the choice of parameters for sodium and chloride. In particular, although all of the models predict that binding will be less exothermic with increasing NaCl concentration, the strength of this effect varies by 7 kcal/mol across models. The differences appear to result primarily from differences in the number of sodium ions displaced from the host upon binding the guest rather than from differences in the enthalpy associated with this displacement, and it is the electrostatic energy that contributes most to the changes in enthalpy with increasing salt concentration. That a high sensitivity of salt affecting the choice of water model, as observed for the present host-guest system despite it being nonionized, raises issues regarding the selection and adjustment of water models for use with biological macromolecules, especially as these typically possess multiple ionized groups that can interact relatively strongly with ions in solution.

  11. STEMS-Air: a simple GIS-based air pollution dispersion model for city-wide exposure assessment.

    Science.gov (United States)

    Gulliver, John; Briggs, David

    2011-05-15

    Current methods of air pollution modelling do not readily meet the needs of air pollution mapping for short-term (i.e. daily) exposure studies. The main limiting factor is that for those few models that couple with a GIS there are insufficient tools for directly mapping air pollution both at high spatial resolution and over large areas (e.g. city wide). A simple GIS-based air pollution model (STEMS-Air) has been developed for PM(10) to meet these needs with the option to choose different exposure averaging periods (e.g. daily and annual). STEMS-Air uses the grid-based FOCALSUM function in ArcGIS in conjunction with a fine grid of emission sources and basic information on meteorology to implement a simple Gaussian plume model of air pollution dispersion. STEMS-Air was developed and validated in London, UK, using data on concentrations of PM(10) from routinely available monitoring data. Results from the validation study show that STEMS-Air performs well in predicting both daily (at four sites) and annual (at 30 sites) concentrations of PM(10). For daily modelling, STEMS-Air achieved r(2) values in the range 0.19-0.43 (pplanning and management, or as the basis for health risk assessment and epidemiological studies. Crown Copyright © 2011. Published by Elsevier B.V. All rights reserved.

  12. An Improved Continuous-Time Model Predictive Control of Permanent Magnetic Synchronous Motors for a Wide-Speed Range

    Directory of Open Access Journals (Sweden)

    Dandan Su

    2017-12-01

    Full Text Available This paper proposes an improved continuous-time model predictive control (CTMPC of permanent magnetic synchronous motors (PMSMs for a wide-speed range, including the constant torque region and the flux-weakening (FW region. In the constant torque region, the mathematic models of PMSMs in dq-axes are decoupled without the limitation of DC-link voltage. However, in the FW region, the mathematic models of PMSMs in dq-axes are cross-coupled together with the limitation of DC-link voltage. A nonlinear PMSMs mathematic model in the FW region is presented based on the voltage angle. The solving of the nonlinear mathematic model of PMSMs in FW region will lead to heavy computation load for digital signal processing (DSP. To overcome such a problem, a linearization method of the voltage angle is also proposed to reduce the computation load. The selection of transiting points between the constant torque region and FW regions is researched to improve the performance of the driven system. Compared with the proportional integral (PI controller, the proposed CTMPC has obvious advantages in dealing with systems’ nonlinear constraints and improving system performance by restraining overshoot current under step torque changing. Both simulation and experimental results confirm the effectiveness of the proposed method in achieving good steady-state performance and smooth switching between the constant torque and FW regions.

  13. Accurate small and wide angle x-ray scattering profiles from atomic models of proteins and nucleic acids.

    Science.gov (United States)

    Nguyen, Hung T; Pabit, Suzette A; Meisburger, Steve P; Pollack, Lois; Case, David A

    2014-12-14

    A new method is introduced to compute X-ray solution scattering profiles from atomic models of macromolecules. The three-dimensional version of the Reference Interaction Site Model (RISM) from liquid-state statistical mechanics is employed to compute the solvent distribution around the solute, including both water and ions. X-ray scattering profiles are computed from this distribution together with the solute geometry. We describe an efficient procedure for performing this calculation employing a Lebedev grid for the angular averaging. The intensity profiles (which involve no adjustable parameters) match experiment and molecular dynamics simulations up to wide angle for two proteins (lysozyme and myoglobin) in water, as well as the small-angle profiles for a dozen biomolecules taken from the BioIsis.net database. The RISM model is especially well-suited for studies of nucleic acids in salt solution. Use of fiber-diffraction models for the structure of duplex DNA in solution yields close agreement with the observed scattering profiles in both the small and wide angle scattering (SAXS and WAXS) regimes. In addition, computed profiles of anomalous SAXS signals (for Rb(+) and Sr(2+)) emphasize the ionic contribution to scattering and are in reasonable agreement with experiment. In cases where an absolute calibration of the experimental data at q = 0 is available, one can extract a count of the excess number of waters and ions; computed values depend on the closure that is assumed in the solution of the Ornstein-Zernike equations, with results from the Kovalenko-Hirata closure being closest to experiment for the cases studied here.

  14. Isca, v1.0: a framework for the global modelling of the atmospheres of Earth and other planets at varying levels of complexity

    Science.gov (United States)

    Vallis, Geoffrey K.; Colyer, Greg; Geen, Ruth; Gerber, Edwin; Jucker, Martin; Maher, Penelope; Paterson, Alexander; Pietschnig, Marianne; Penn, James; Thomson, Stephen I.

    2018-03-01

    Isca is a framework for the idealized modelling of the global circulation of planetary atmospheres at varying levels of complexity and realism. The framework is an outgrowth of models from the Geophysical Fluid Dynamics Laboratory in Princeton, USA, designed for Earth's atmosphere, but it may readily be extended into other planetary regimes. Various forcing and radiation options are available, from dry, time invariant, Newtonian thermal relaxation to moist dynamics with radiative transfer. Options are available in the dry thermal relaxation scheme to account for the effects of obliquity and eccentricity (and so seasonality), different atmospheric optical depths and a surface mixed layer. An idealized grey radiation scheme, a two-band scheme, and a multiband scheme are also available, all with simple moist effects and astronomically based solar forcing. At the complex end of the spectrum the framework provides a direct connection to comprehensive atmospheric general circulation models. For Earth modelling, options include an aquaplanet and configurable continental outlines and topography. Continents may be defined by changing albedo, heat capacity, and evaporative parameters and/or by using a simple bucket hydrology model. Oceanic Q fluxes may be added to reproduce specified sea surface temperatures, with arbitrary continental distributions. Planetary atmospheres may be configured by changing planetary size and mass, solar forcing, atmospheric mass, radiation, and other parameters. Examples are given of various Earth configurations as well as a giant planet simulation, a slowly rotating terrestrial planet simulation, and tidally locked and other orbitally resonant exoplanet simulations. The underlying model is written in Fortran and may largely be configured with Python scripts. Python scripts are also used to run the model on different architectures, to archive the output, and for diagnostics, graphics, and post-processing. All of these features are publicly

  15. Isca, v1.0: a framework for the global modelling of the atmospheres of Earth and other planets at varying levels of complexity

    Directory of Open Access Journals (Sweden)

    G. K. Vallis

    2018-03-01

    Full Text Available Isca is a framework for the idealized modelling of the global circulation of planetary atmospheres at varying levels of complexity and realism. The framework is an outgrowth of models from the Geophysical Fluid Dynamics Laboratory in Princeton, USA, designed for Earth's atmosphere, but it may readily be extended into other planetary regimes. Various forcing and radiation options are available, from dry, time invariant, Newtonian thermal relaxation to moist dynamics with radiative transfer. Options are available in the dry thermal relaxation scheme to account for the effects of obliquity and eccentricity (and so seasonality, different atmospheric optical depths and a surface mixed layer. An idealized grey radiation scheme, a two-band scheme, and a multiband scheme are also available, all with simple moist effects and astronomically based solar forcing. At the complex end of the spectrum the framework provides a direct connection to comprehensive atmospheric general circulation models. For Earth modelling, options include an aquaplanet and configurable continental outlines and topography. Continents may be defined by changing albedo, heat capacity, and evaporative parameters and/or by using a simple bucket hydrology model. Oceanic Q fluxes may be added to reproduce specified sea surface temperatures, with arbitrary continental distributions. Planetary atmospheres may be configured by changing planetary size and mass, solar forcing, atmospheric mass, radiation, and other parameters. Examples are given of various Earth configurations as well as a giant planet simulation, a slowly rotating terrestrial planet simulation, and tidally locked and other orbitally resonant exoplanet simulations. The underlying model is written in Fortran and may largely be configured with Python scripts. Python scripts are also used to run the model on different architectures, to archive the output, and for diagnostics, graphics, and post-processing. All of these features

  16. Time-varying Markov regression random-effect model with Bayesian estimation procedures: Application to dynamics of functional recovery in patients with stroke.

    Science.gov (United States)

    Pan, Shin-Liang; Chen, Hsiu-Hsi

    2010-09-01

    The rates of functional recovery after stroke tend to decrease with time. Time-varying Markov processes (TVMP) may be more biologically plausible than time-invariant Markov process for modeling such data. However, analysis of such stochastic processes, particularly tackling reversible transitions and the incorporation of random effects into models, can be analytically intractable. We make use of ordinary differential equations to solve continuous-time TVMP with reversible transitions. The proportional hazard form was used to assess the effects of an individual's covariates on multi-state transitions with the incorporation of random effects that capture the residual variation after being explained by measured covariates under the concept of generalized linear model. We further built up Bayesian directed acyclic graphic model to obtain full joint posterior distribution. Markov chain Monte Carlo (MCMC) with Gibbs sampling was applied to estimate parameters based on posterior marginal distributions with multiple integrands. The proposed method was illustrated with empirical data from a study on the functional recovery after stroke. Copyright 2010 Elsevier Inc. All rights reserved.

  17. Development of a wide band radiative transfer model based on a fast correlated k-distributions generation

    Science.gov (United States)

    Croize, Laurence; Pierro, Jean; Huet, Thierry; Labarre, Luc

    2016-04-01

    MATISSE which acronym means Advanced Modeling of the Earth for Environment and Scenes Simulation is developed by ONERA since the mid 1990's. The code main functionality is to compute spectral or integrated natural background radiance images. Natural backgrounds include the atmosphere, low and high altitude clouds, sea and land. It can also provide specific radiative atmospheric terms as path transmission, path radiances, sky radiances or local illumination around a target point. Spectral bandwidth ranges from 700 to 25000 cm-1 wavenumber (i.e. from 0.4 to 14 μm). As far as molecular absorption is concerned, MATISSE v2.0 is based on a correlated K (CK) model and needs a pre-generation of the k-distributions. This method is very precise but is time consuming and is done as an offline calculation. In answer to the increasing need of rapid radiative transfer codes, the future version of the MATISSE v3.0 will include a fast radiative transfer model at low and at medium spectral resolution. This work aims to develop a fast wide band CK model for the acceleration of radiative transfer calculation. As a first step, a statistical k-distributions fast generator was developed. It allows generating k-distributions from 700 to 25000 cm-1 with a spectral resolution of 1 cm-1 in less than 30 ms(*) for one altitude (that means about three orders of magnitude faster than before). Such speed allows generating k-distributions online. To validate the model, we have compared the obtained transmission spectra with reference spectra using a mix of 6 molecules (H2O, CO2, O3, N2O, CO, CH4) in homogenous atmosphere corresponding to different altitudes from 0 to 105 km. Reference spectra were calculated as the convolution of a spectrum obtained with a line by line model and a gate function of 1 cm-1 wide. An average difference of 3×10-3 % and a standard deviation of 3.3% were typically obtained. As a second step, this method of rapid k-distributions generation is now being coupled with a

  18. Deep Structure and Evolution of the Northeastern Gulf of Aden Margin From Wide-Angle Seismic and Thermomechanical Modeling

    Science.gov (United States)

    Watremez, L.; Leroy, S.; Rouzo, S.; D'Acremont, E.; Burov, E. B.

    2009-12-01

    The Encens survey wide-angle and gravity data (Leroy et al., Feb. March 2006) allow us to determine the deep structure of the northeastern Gulf of Aden non-volcanic passive margin. The Gulf of Aden is a young oceanic basin. Its accretion began at least 17.6 Ma ago. Its current geometry shows 1st and 2nd order segmentation. Our study focus on the second order Ashawq-Salalah segment. We studied six wide-angle seismic (WAS) and gravity profiles (three along and three across the margin). Modeling of the WAS and gravity data gives insights on the first and second orders structures : (1) Continental thinning is abrupt (15-20 km thinning along 50-100 km distance). It is accommodated by four tilted blocks. (2) The OCT is narrow (15 km wide). Its geometry is determined by the velocity models: oceanic-type upper-crust (4.5 km/s) and continental-type lower-crust (> 6.5 km/s). (3) The thickness of the oceanic crust decreases from West (10 km) to East (5.5 km). This pattern is probably linked to a variation of magma supply along the paleo-slow-spreading ridge axis. (4) A 5 km thick intermediate velocity body (7.6 to 7.8 km/s) is present at the crust-mantle interface below the margin. It is interpreted as post-rift underplated, or partly intruded, mafic material. This interpretation is consistent with the presence of a volcano evidenced by heat flow measurement and multichannel seismic reflection (Encens surveys). The studied segment is mainly characterized by abrupt continental thinning and narrow OCT. Moreover, this non-volcanic passive margin is affected by post-rift volcanism evidenced by the mafic body. We then suggest that the evolution of non-volcanic passive margins may be influenced by post-rift thermal anomalies. We will compare these above results with thermomechanical models in order to constrain the margin evolution and factors leading to the Gulf of Aden formation. Modeling is processed using Para(o)voz/Flamar code. This allows us to experiment the influence of

  19. Model-driven requirements engineering (MDRE) for real-time ultra-wide instantaneous bandwidth signal simulation

    Science.gov (United States)

    Chang, Daniel Y.; Rowe, Neil C.

    2013-05-01

    While conducting a cutting-edge research in a specific domain, we realize that (1) requirements clarity and correctness are crucial to our success [1], (2) hardware is hard to change, most work is in software requirements development, coding and testing [2], (3) requirements are constantly changing, so that configurability, reusability, scalability, adaptability, modularity and testability are important non-functional attributes [3], (4) cross-domain knowledge is necessary for complex systems [4], and (5) if our research is successful, the results could be applied to other domains with similar problems. In this paper, we propose to use model-driven requirements engineering (MDRE) to model and guide our requirements/development, since models are easy to understand, execute, and modify. The domain for our research is Electronic Warfare (EW) real-time ultra-wide instantaneous bandwidth (IBW1) signal simulation. The proposed four MDRE models are (1) Switch-and-Filter architecture, (2) multiple parallel data bit streams alignment, (3) post-ADC and pre-DAC bits re-mapping, and (4) Discrete Fourier Transform (DFT) filter bank. This research is unique since the instantaneous bandwidth we are dealing with is in gigahertz range instead of conventional megahertz.

  20. Creating realistic models and resolution assessment in tomographic inversion of wide-angle active seismic profiling data

    Science.gov (United States)

    Stupina, T.; Koulakov, I.; Kopp, H.

    2009-04-01

    We consider questions of creating structural models and resolution assessment in tomographic inversion of wide-angle active seismic profiling data. For our investigations, we use the PROFIT (Profile Forward and Inverse Tomographic modeling) algorithm which was tested earlier with different datasets. Here we consider offshore seismic profiling data from three areas (Chile, Java and Central Pacific). Two of the study areas are characterized by subduction zones whereas the third data set covers a seamount province. We have explored different algorithmic issues concerning the quality of the solution, such as (1) resolution assessment using different sizes and complexity of synthetic anomalies; (2) grid spacing effects; (3) amplitude damping and smoothing; (4) criteria for rejection of outliers; (5) quantitative criteria for comparing models. Having determined optimal algorithmic parameters for the observed seismic profiling data we have created structural synthetic models which reproduce the results of the observed data inversion. For the Chilean and Java subduction zones our results show similar patterns: a relatively thin sediment layer on the oceanic plate, thicker inhomogeneous sediments in the overlying plate and a large area of very strong low velocity anomalies in the accretionary wedge. For two seamounts in the Pacific we observe high velocity anomalies in the crust which can be interpreted as frozen channels inside the dormant volcano cones. Along both profiles we obtain considerable crustal thickening beneath the seamounts.

  1. Combining Genome-Wide Information with a Functional Structural Plant Model to Simulate 1-Year-Old Apple Tree Architecture

    Science.gov (United States)

    Migault, Vincent; Pallas, Benoît; Costes, Evelyne

    2017-01-01

    In crops, optimizing target traits in breeding programs can be fostered by selecting appropriate combinations of architectural traits which determine light interception and carbon acquisition. In apple tree, architectural traits were observed to be under genetic control. However, architectural traits also result from many organogenetic and morphological processes interacting with the environment. The present study aimed at combining a FSPM built for apple tree, MAppleT, with genetic determinisms of architectural traits, previously described in a bi-parental population. We focused on parameters related to organogenesis (phyllochron and immediate branching) and morphogenesis processes (internode length and leaf area) during the first year of tree growth. Two independent datasets collected in 2004 and 2007 on 116 genotypes, issued from a ‘Starkrimson’ × ‘Granny Smith’ cross, were used. The phyllochron was estimated as a function of thermal time and sylleptic branching was modeled subsequently depending on phyllochron. From a genetic map built with SNPs, marker effects were estimated on four MAppleT parameters with rrBLUP, using 2007 data. These effects were then considered in MAppleT to simulate tree development in the two climatic conditions. The genome wide prediction model gave consistent estimations of parameter values with correlation coefficients between observed values and estimated values from SNP markers ranging from 0.79 to 0.96. However, the accuracy of the prediction model following cross validation schemas was lower. Three integrative traits (the number of leaves, trunk length, and number of sylleptic laterals) were considered for validating MAppleT simulations. In 2007 climatic conditions, simulated values were close to observations, highlighting the correct simulation of genetic variability. However, in 2004 conditions which were not used for model calibration, the simulations differed from observations. This study demonstrates the possibility

  2. Genome-wide association of coagulation properties, curd firmness modeling, protein percentage, and acidity in milk from Brown Swiss cows.

    Science.gov (United States)

    Dadousis, C; Biffani, S; Cipolat-Gotet, C; Nicolazzi, E L; Rossoni, A; Santus, E; Bittante, G; Cecchinato, A

    2016-05-01

    Cheese production is increasing in many countries, and a desire toward genetic selection for milk coagulation properties in dairy cattle breeding exists. However, measurements of individual cheesemaking properties are hampered by high costs and labor, whereas traditional single-point milk coagulation properties (MCP) are sometimes criticized. Nevertheless, new modeling of the entire curd firmness and syneresis process (CFt equation) offers new insight into the cheesemaking process. Moreover, identification of genomic regions regulating milk cheesemaking properties might enhance direct selection of individuals in breeding programs based on cheese ability rather than related milk components. Therefore, the objective of this study was to perform genome-wide association studies to identify genomic regions linked to traditional MCP and new CFt parameters, milk acidity (pH), and milk protein percentage. Milk and DNA samples from 1,043 Italian Brown Swiss cows were used. Milk pH and 3 MCP traits were grouped together to represent the MCP set. Four CFt equation parameters, 2 derived traits, and protein percentage were considered as the second group of traits (CFt set). Animals were genotyped with the Illumina SNP50 BeadChip v.2 (Illumina Inc., San Diego, CA). Multitrait animal models were used to estimate variance components. For genome-wide association studies, the genome-wide association using mixed model and regression-genomic control approach was used. In total, 106 significant marker traits associations and 66 single nucleotide polymorphisms were identified on 12 chromosomes (1, 6, 9, 11, 13, 15, 16, 19, 20, 23, 26, and 28). Sharp peaks were detected at 84 to 88 Mbp on Bos taurus autosome (BTA) 6, with a peak at 87.4 Mbp in the region harboring the casein genes. Evidence of quantitative trait loci at 82.6 and 88.4 Mbp on the same chromosome was found. All chromosomes but BTA6, BTA11, and BTA28 were associated with only one trait. Only BTA6 was in common between MCP

  3. Implementation of Remaining Useful Lifetime Transformer Models in the Fleet-Wide Prognostic and Health Management Suite

    Energy Technology Data Exchange (ETDEWEB)

    Agarwal, Vivek [Idaho National Lab. (INL), Idaho Falls, ID (United States); Lybeck, Nancy J. [Idaho National Lab. (INL), Idaho Falls, ID (United States); Pham, Binh [Idaho National Lab. (INL), Idaho Falls, ID (United States); Rusaw, Richard [Electric Power Research Inst. (EPRI), Palo Alto, CA (United States); Bickford, Randall [Expert Microsystems, Orangevale, CA (United States)

    2015-02-01

    Research and development efforts are required to address aging and reliability concerns of the existing fleet of nuclear power plants. As most plants continue to operate beyond the license life (i.e., towards 60 or 80 years), plant components are more likely to incur age-related degradation mechanisms. To assess and manage the health of aging plant assets across the nuclear industry, the Electric Power Research Institute has developed a web-based Fleet-Wide Prognostic and Health Management (FW-PHM) Suite for diagnosis and prognosis. FW-PHM is a set of web-based diagnostic and prognostic tools and databases, comprised of the Diagnostic Advisor, the Asset Fault Signature Database, the Remaining Useful Life Advisor, and the Remaining Useful Life Database, that serves as an integrated health monitoring architecture. The main focus of this paper is the implementation of prognostic models for generator step-up transformers in the FW-PHM Suite. One prognostic model discussed is based on the functional relationship between degree of polymerization, (the most commonly used metrics to assess the health of the winding insulation in a transformer) and furfural concentration in the insulating oil. The other model is based on thermal-induced degradation of the transformer insulation. By utilizing transformer loading information, established thermal models are used to estimate the hot spot temperature inside the transformer winding. Both models are implemented in the Remaining Useful Life Database of the FW-PHM Suite. The Remaining Useful Life Advisor utilizes the implemented prognostic models to estimate the remaining useful life of the paper winding insulation in the transformer based on actual oil testing and operational data.

  4. Comparative ecology of widely distributed pelagic fish species in the North Atlantic: Implications for modelling climate and fisheries impacts

    Science.gov (United States)

    Trenkel, V. M.; Huse, G.; MacKenzie, B. R.; Alvarez, P.; Arrizabalaga, H.; Castonguay, M.; Goñi, N.; Grégoire, F.; Hátún, H.; Jansen, T.; Jacobsen, J. A.; Lehodey, P.; Lutcavage, M.; Mariani, P.; Melvin, G. D.; Neilson, J. D.; Nøttestad, L.; Óskarsson, G. J.; Payne, M. R.; Richardson, D. E.; Senina, I.; Speirs, D. C.

    2014-12-01

    This paper reviews the current knowledge on the ecology of widely distributed pelagic fish stocks in the North Atlantic basin with emphasis on their role in the food web and the factors determining their relationship with the environment. We consider herring (Clupea harengus), mackerel (Scomber scombrus), capelin (Mallotus villosus), blue whiting (Micromesistius poutassou), and horse mackerel (Trachurus trachurus), which have distributions extending beyond the continental shelf and predominantly occur on both sides of the North Atlantic. We also include albacore (Thunnus alalunga), bluefin tuna (Thunnus thynnus), swordfish (Xiphias gladius), and blue marlin (Makaira nigricans), which, by contrast, show large-scale migrations at the basin scale. We focus on the links between life history processes and the environment, horizontal and vertical distribution, spatial structure and trophic role. Many of these species carry out extensive migrations from spawning grounds to nursery and feeding areas. Large oceanographic features such as the North Atlantic subpolar gyre play an important role in determining spatial distributions and driving variations in stock size. Given the large biomasses of especially the smaller species considered here, these stocks can exert significant top-down pressures on the food web and are important in supporting higher trophic levels. The review reveals commonalities and differences between the ecology of widely distributed pelagic fish in the NE and NW Atlantic basins, identifies knowledge gaps and modelling needs that the EURO-BASIN project attempts to address.

  5. A plant wide aqueous phase chemistry model describing pH variations and ion speciation/pairing in wastewater treatment process models

    DEFF Research Database (Denmark)

    Flores-Alsina, X.; Mbamba, C. Kazadi; Solon, K.

    /pairing is presented and interfaced with industry standard models. The module involves extensive consideration of non-ideality by including ion activities instead of molar concentrations and complex ion pairing. The general equilibria are formulated as a set of Differential Algebraic Equations (DAEs) instead......There is a growing interest within the Wastewater Treatment Plant (WWTP) modelling community to correctly describe physico-chemical processes after many years of mainly focusing on biokinetics (Batstone et al., 2012). Indeed, future modelling needs, such as a plant-wide phosphorus (P) description...... cationic/anionic loads. In this way, the general applicability/flexibility of the proposed approach is demonstrated by implementing the aqueous phase chemistry module in some of the most frequently used WWTP process simulation models. Finally, it is shown how traditional wastewater modelling studies can...

  6. Crustal structure and velocity model of the Moroccan Atlas from refraction/wide angle data. Implications for its tectonic evolution

    Science.gov (United States)

    Ayarza, P.; Carbonell, R.; Teixell, A.; Martí, D.; Kchikach, A.; Harnafi, M.; Palomeras, I.; Levander, A.; Gallart, J.; Arboleya, M.; Ouraini, F.; Charroud, M.; Amrhar, M.

    2012-12-01

    The Atlas Mountain Range is an intra-continental Cenozoic orogenic belt located at the southern edge of the diffuse plate boundary zone separating Africa and Europe. Its western part, the Moroccan Atlas, has long been under the scope of scientist regarding the origin of its high topographies, locally exceeding 4000 m. Geological studies indicate that this mountain belt has experienced low to moderate shortening. Furthermore, the later decreases as topography increases towards the west. These observations rise the question about the origin of the Atlas Mountains topography. Potential field studies indicate that an astenospheric upwelling supports the Atlas high elevations. However, these models depend strongly on the Moho topography and depth. Refraction/wide angle experiments carried out in the 80's suggested that the crust is thin and the Moho relatively flat. However, the proposed crustal structure and velocity inversions are not in agreement with the present models of this mountain belt. With the goal of improving the knowledge of the Moho boundary geometry and the velocity structure of the crust, a refraction/wide angle experiment was carried out in spring 2010 by an international team: the SIMA (Seismic Imaging of the Moroccan Atlas) experiment. A ~700 km long profile, going from Tanger to the Sahara Desert, south of Merzouga, recorded, every 400-1000 m, the energy of 6, 1 tn shots. Even with a low signal/noise ratio, the data allows the identification of crustal phases (Ps, Pg and PiP) and Moho reflected/refracted phases (PmP and Pn). Very weak subcrustal energy appers in some shot gathers. Forward modeling pictures a 3 layers crust and shows the Moho as an asymmetric feature that locally defines a crustal root, suggesting that the crust is imbricated. The crust-mantle boundary is modeled at relatively shallow depths that are in accordance with the results of other geophysical data, thus supporting the idea of a 'mantle plume' as main contributor to the Atlas

  7. Using Range-Wide Abundance Modeling to Identify Key Conservation Areas for the Micro-Endemic Bolson Tortoise (Gopherus flavomarginatus.

    Directory of Open Access Journals (Sweden)

    Cinthya A Ureña-Aranda

    Full Text Available A widespread biogeographic pattern in nature is that population abundance is not uniform across the geographic range of species: most occurrence sites have relatively low numbers, whereas a few places contain orders of magnitude more individuals. The Bolson tortoise Gopherus flavomarginatus is endemic to a small region of the Chihuahuan Desert in Mexico, where habitat deterioration threatens this species with extinction. In this study we combined field burrows counts and the approach for modeling species abundance based on calculating the distance to the niche centroid to obtain range-wide abundance estimates. For the Bolson tortoise, we found a robust, negative relationship between observed burrows abundance and distance to the niche centroid, with a predictive capacity of 71%. Based on these results we identified four priority areas for the conservation of this microendemic and threatened tortoise. We conclude that this approach may be a useful approximation for identifying key areas for sampling and conservation efforts in elusive and rare species.

  8. Organic carbon recovery modeling for a rotating belt filter and its impact assessment on a plant-wide scale

    DEFF Research Database (Denmark)

    Behera, Chitta Ranjan; Santoro, Domenico; Gernaey, Krist V.

    2018-01-01

    In this study, we perform a systematic plant-wide assessment of the organic carbon recovery concept on wastewater treatment plants by an advanced cellulose recovery enabling technology called rotating belt filter (RBF). To this end, first, an empirical model is developed to describe organic carbon...... not increase the greenhouse gas (N2ON2O) emission. Further sensitivity analysis indicates that the impact of the organic carbon recovery concept depends on the wastewater characteristics, especially the cellulose content and its biodegradability. Overall, the organic carbon recovery technology can be used...... to provide plant specific improvements achieved by maximizing organic carbon recovery in the form of methane gas or enhancing nitrogen removal depending on the treatment plant operation objectives and priorities....

  9. Using Range-Wide Abundance Modeling to Identify Key Conservation Areas for the Micro-Endemic Bolson Tortoise (Gopherus flavomarginatus).

    Science.gov (United States)

    Ureña-Aranda, Cinthya A; Rojas-Soto, Octavio; Martínez-Meyer, Enrique; Yáñez-Arenas, Carlos; Landgrave Ramírez, Rosario; Espinosa de los Monteros, Alejandro

    2015-01-01

    A widespread biogeographic pattern in nature is that population abundance is not uniform across the geographic range of species: most occurrence sites have relatively low numbers, whereas a few places contain orders of magnitude more individuals. The Bolson tortoise Gopherus flavomarginatus is endemic to a small region of the Chihuahuan Desert in Mexico, where habitat deterioration threatens this species with extinction. In this study we combined field burrows counts and the approach for modeling species abundance based on calculating the distance to the niche centroid to obtain range-wide abundance estimates. For the Bolson tortoise, we found a robust, negative relationship between observed burrows abundance and distance to the niche centroid, with a predictive capacity of 71%. Based on these results we identified four priority areas for the conservation of this microendemic and threatened tortoise. We conclude that this approach may be a useful approximation for identifying key areas for sampling and conservation efforts in elusive and rare species.

  10. Genome-wide prediction models that incorporate de novo GWAS are a powerful new tool for tropical rice improvement

    Science.gov (United States)

    Spindel, J E; Begum, H; Akdemir, D; Collard, B; Redoña, E; Jannink, J-L; McCouch, S

    2016-01-01

    To address the multiple challenges to food security posed by global climate change, population growth and rising incomes, plant breeders are developing new crop varieties that can enhance both agricultural productivity and environmental sustainability. Current breeding practices, however, are unable to keep pace with demand. Genomic selection (GS) is a new technique that helps accelerate the rate of genetic gain in breeding by using whole-genome data to predict the breeding value of offspring. Here, we describe a new GS model that combines RR-BLUP with markers fit as fixed effects selected from the results of a genome-wide-association study (GWAS) on the RR-BLUP training data. We term this model GS + de novo GWAS. In a breeding population of tropical rice, GS + de novo GWAS outperformed six other models for a variety of traits and in multiple environments. On the basis of these results, we propose an extended, two-part breeding design that can be used to efficiently integrate novel variation into elite breeding populations, thus expanding genetic diversity and enhancing the potential for sustainable productivity gains. PMID:26860200

  11. GEMMER: GEnome-wide tool for Multi-scale Modeling data Extraction and Representation for Saccharomyces cerevisiae.

    Science.gov (United States)

    Mondeel, Thierry D G A; Crémazy, Frédéric; Barberis, Matteo

    2018-02-01

    Multi-scale modeling of biological systems requires integration of various information about genes and proteins that are connected together in networks. Spatial, temporal and functional information is available; however, it is still a challenge to retrieve and explore this knowledge in an integrated, quick and user-friendly manner. We present GEMMER (GEnome-wide tool for Multi-scale Modelling data Extraction and Representation), a web-based data-integration tool that facilitates high quality visualization of physical, regulatory and genetic interactions between proteins/genes in Saccharomyces cerevisiae. GEMMER creates network visualizations that integrate information on function, temporal expression, localization and abundance from various existing databases. GEMMER supports modeling efforts by effortlessly gathering this information and providing convenient export options for images and their underlying data. GEMMER is freely available at http://gemmer.barberislab.com. Source code, written in Python, JavaScript library D3js, PHP and JSON, is freely available at https://github.com/barberislab/GEMMER. M.Barberis@uva.nl. Supplementary data are available at Bioinformatics online. © The Author(s) 2018. Published by Oxford University Press.

  12. Genome-wide prediction models that incorporate de novo GWAS are a powerful new tool for tropical rice improvement.

    Science.gov (United States)

    Spindel, J E; Begum, H; Akdemir, D; Collard, B; Redoña, E; Jannink, J-L; McCouch, S

    2016-04-01

    To address the multiple challenges to food security posed by global climate change, population growth and rising incomes, plant breeders are developing new crop varieties that can enhance both agricultural productivity and environmental sustainability. Current breeding practices, however, are unable to keep pace with demand. Genomic selection (GS) is a new technique that helps accelerate the rate of genetic gain in breeding by using whole-genome data to predict the breeding value of offspring. Here, we describe a new GS model that combines RR-BLUP with markers fit as fixed effects selected from the results of a genome-wide-association study (GWAS) on the RR-BLUP training data. We term this model GS + de novo GWAS. In a breeding population of tropical rice, GS + de novo GWAS outperformed six other models for a variety of traits and in multiple environments. On the basis of these results, we propose an extended, two-part breeding design that can be used to efficiently integrate novel variation into elite breeding populations, thus expanding genetic diversity and enhancing the potential for sustainable productivity gains.

  13. Genome-wide significant localization for working and spatial memory: Identifying genes for psychosis using models of cognition.

    Science.gov (United States)

    Knowles, Emma E M; Carless, Melanie A; de Almeida, Marcio A A; Curran, Joanne E; McKay, D Reese; Sprooten, Emma; Dyer, Thomas D; Göring, Harald H; Olvera, Rene; Fox, Peter; Almasy, Laura; Duggirala, Ravi; Kent, Jack W; Blangero, John; Glahn, David C

    2014-01-01

    It is well established that risk for developing psychosis is largely mediated by the influence of genes, but identifying precisely which genes underlie that risk has been problematic. Focusing on endophenotypes, rather than illness risk, is one solution to this problem. Impaired cognition is a well-established endophenotype of psychosis. Here we aimed to characterize the genetic architecture of cognition using phenotypically detailed models as opposed to relying on general IQ or individual neuropsychological measures. In so doing we hoped to identify genes that mediate cognitive ability, which might also contribute to psychosis risk. Hierarchical factor models of genetically clustered cognitive traits were subjected to linkage analysis followed by QTL region-specific association analyses in a sample of 1,269 Mexican American individuals from extended pedigrees. We identified four genome wide significant QTLs, two for working and two for spatial memory, and a number of plausible and interesting candidate genes. The creation of detailed models of cognition seemingly enhanced the power to detect genetic effects on cognition and provided a number of possible candidate genes for psychosis. © 2013 Wiley Periodicals, Inc.

  14. Modeled dietary impact of industry-wide food and beverage reformulations in the United States and France.

    Science.gov (United States)

    Gressier, Mathilde; Privet, Lisa; Mathias, Kevin Clark; Vlassopoulos, Antonis; Vieux, Florent; Masset, Gabriel

    2017-07-01

    Background: Food reformulation has been identified as a strategy to improve nutritional intakes; however, little is known about the potential impact of industry-wide reformulations. Objective: The aim of the study was to model the dietary impact of food and beverage reformulation following the Nestlé Nutritional Profiling System (NNPS) standards for children, adolescents, and adults in the United States and France. Design: Dietary intakes of individuals aged ≥4 y were retrieved from nationally representative surveys: the US NHANES 2011-2012 ( n = 7456) and the French Individual and National Survey on Food Consumption ( n = 3330). The composition of all foods and beverages consumed were compared with the NNPS standards for energy, total and saturated fats, sodium, added sugars, protein, fiber, and calcium. Two scenarios were modeled. In the first, the nutrient content of foods and beverages was adjusted to the NNPS standards if they were not met. In the second, products not meeting the standards were replaced by the most nutritionally similar alternative meeting the standards from the same category. Dietary intakes were assessed against local nutrient recommendations, and analyses were stratified by body mass index and socioeconomic status. Results: Scenarios 1 and 2 showed reductions in US adults' mean daily energy (-88 and -225 kcal, respectively), saturated fats (-4.2, -6.9 g), sodium (-406, -324 mg), and added sugars (-29.4, -35.8 g). Similar trends were observed for US youth and in France. The effects on fiber and calcium were limited. In the United States, the social gradient of added sugars intake was attenuated in both scenarios compared with the baseline values. Conclusions: Potential industry-wide reformulation of the food supply could lead to higher compliance with recommendations in both the United States and France, and across all socioeconomic groups. NNPS standards seemed to be especially effective for nutrients consumed in excess. © 2017 American

  15. varying elastic parameters distributions

    KAUST Repository

    Moussawi, Ali

    2014-12-01

    The experimental identication of mechanical properties is crucial in mechanics for understanding material behavior and for the development of numerical models. Classical identi cation procedures employ standard shaped specimens, assume that the mechanical elds in the object are homogeneous, and recover global properties. Thus, multiple tests are required for full characterization of a heterogeneous object, leading to a time consuming and costly process. The development of non-contact, full- eld measurement techniques from which complex kinematic elds can be recorded has opened the door to a new way of thinking. From the identi cation point of view, suitable methods can be used to process these complex kinematic elds in order to recover multiple spatially varying parameters through one test or a few tests. The requirement is the development of identi cation techniques that can process these complex experimental data. This thesis introduces a novel identi cation technique called the constitutive compatibility method. The key idea is to de ne stresses as compatible with the observed kinematic eld through the chosen class of constitutive equation, making possible the uncoupling of the identi cation of stress from the identi cation of the material parameters. This uncoupling leads to parametrized solutions in cases where 5 the solution is non-unique (due to unknown traction boundary conditions) as demonstrated on 2D numerical examples. First the theory is outlined and the method is demonstrated in 2D applications. Second, the method is implemented within a domain decomposition framework in order to reduce the cost for processing very large problems. Finally, it is extended to 3D numerical examples. Promising results are shown for 2D and 3D problems.

  16. Can widely used cell type markers predict the suitability of immortalized or primary mammary epithelial cell models?

    Directory of Open Access Journals (Sweden)

    Edgar Corneille Ontsouka

    Full Text Available BACKGROUND: Mammary cell cultures are convenient tools for in vitro studies of mammary gland biology. However, the heterogeneity of mammary cell types, e.g., glandular milk secretory epithelial or myoepithelial cells, often complicates the interpretation of cell-based data. The present study was undertaken to determine the relevance of bovine primary mammary epithelial cells isolated from American Holstein (bMEC US or Swiss Holstein-Friesian (bMEC CH cows, and of primary bovine mammary alveolar epithelial cells stably transfected with simian virus-40 (SV-40 large T-antigen (MAC-T for in vitro analyses. This was evaluated by testing their expression pattern of cytokeratin (CK 7, 18, 19, vimentin, and α-smooth muscle actin (α-SMA. RESULTS: The expression of the listed markers was assessed using real-time quantitative PCR, flow cytometry and immunofluorescence microscopy. Characteristic markers of the mesenchymal (vimentin, myoepithelial (α-SMA and glandular secretory cells (CKs showed differential expression among the studied cell cultures, partly depending on the analytical method used. The relative mRNA expression of vimentin, CK7 and CK19, respectively, was lower (P < 0.05 in immortalized than in primary mammary cell cultures. The stain index (based on flow cytometry of CK7 and CK19 protein was lower (P < 0.05 in MAC-T than in bMECs, while the expression of α-SMA and CK18 showed an inverse pattern. Immunofluorescence microscopy analysis mostly confirmed the mRNA data, while partly disagreed with flow cytometry data (e.g., vimentin level in MAC-T. The differential expression of CK7 and CK19 allowed discriminating between immortal and primary mammary cultures. CONCLUSIONS: The expression of the selected widely used cell type markers in primary and immortalized MEC cells did not allow a clear preference between these two cell models for in vitro analyses studying aspects of milk composition. All tested cell models exhibited to a variable

  17. An investigation into the use of a mixture model for simulating the electrical properties of soil with varying effective saturation levels for sub-soil imaging using ECT

    International Nuclear Information System (INIS)

    Hayes, R R; Newill, P A; Podd, F J W; York, T A; Grieve, B D; Dorn, O

    2010-01-01

    A new visualisation tool is being developed for seed breeders, providing on-line data for each individual plant in a screening programme. It will be used to indicate how efficiently each plant utilises the water and nutrients available in the surrounding soil. This will facilitate early detection of desirable genetic traits with the aim of increased efficiency in identification and delivery of tomorrow's drought tolerant food crops. Visualisation takes the form of Electrical Capacitance Tomography (ECT), a non-destructive and non-intrusive imaging technique. Measurements are to be obtained for an individual plant thus allowing water and nutrient absorption levels for an individual specimen to be inferred. This paper presents the inverse problem, discusses the inherent challenges and presents the early experimental results. Two mixture models are evaluated for the prediction of electrical capacitance measurement data for varying effective soil saturation levels using a finite element model implemented in COMSOL Multiphysics. These early studies have given the research team an understanding of the technical challenges that must now be addressed to take the current research into the world of agri-science and food supply.

  18. A time-varying effect model for examining group differences in trajectories of zero-inflated count outcomes with applications in substance abuse research.

    Science.gov (United States)

    Yang, Songshan; Cranford, James A; Jester, Jennifer M; Li, Runze; Zucker, Robert A; Buu, Anne

    2017-02-28

    This study proposes a time-varying effect model for examining group differences in trajectories of zero-inflated count outcomes. The motivating example demonstrates that this zero-inflated Poisson model allows investigators to study group differences in different aspects of substance use (e.g., the probability of abstinence and the quantity of alcohol use) simultaneously. The simulation study shows that the accuracy of estimation of trajectory functions improves as the sample size increases; the accuracy under equal group sizes is only higher when the sample size is small (100). In terms of the performance of the hypothesis testing, the type I error rates are close to their corresponding significance levels under all settings. Furthermore, the power increases as the alternative hypothesis deviates more from the null hypothesis, and the rate of this increasing trend is higher when the sample size is larger. Moreover, the hypothesis test for the group difference in the zero component tends to be less powerful than the test for the group difference in the Poisson component. Copyright © 2016 John Wiley & Sons, Ltd. Copyright © 2016 John Wiley & Sons, Ltd.

  19. Reconstruction of Oryza sativa indica Genome Scale Metabolic Model and Its Responses to Varying RuBisCO Activity, Light Intensity, and Enzymatic Cost Conditions

    Directory of Open Access Journals (Sweden)

    Ankita Chatterjee

    2017-11-01

    Full Text Available To combat decrease in rice productivity under different stresses, an understanding of rice metabolism is needed. Though there are different genome scale metabolic models (GSMs of Oryza sativa japonica, no GSM with gene-protein-reaction association exist for Oryza sativa indica. Here, we report a GSM, OSI1136 of O.s. indica, which includes 3602 genes and 1136 metabolic reactions and transporters distributed across the cytosol, mitochondrion, peroxisome, and chloroplast compartments. Flux balance analysis of the model showed that for varying RuBisCO activity (Vc/Vo (i the activity of the chloroplastic malate valve increases to transport reducing equivalents out of the chloroplast under increased photorespiratory conditions and (ii glyceraldehyde-3-phosphate dehydrogenase and phosphoglycerate kinase can act as source of cytosolic ATP under decreased photorespiration. Under increasing light conditions we observed metabolic flexibility, involving photorespiration, chloroplastic triose phosphate and the dicarboxylate transporters of the chloroplast and mitochondrion for redox and ATP exchanges across the intracellular compartments. Simulations under different enzymatic cost conditions revealed (i participation of peroxisomal glutathione-ascorbate cycle in photorespiratory H2O2 metabolism (ii different modes of the chloroplastic triose phosphate transporters and malate valve, and (iii two possible modes of chloroplastic Glu–Gln transporter which were related with the activity of chloroplastic and cytosolic isoforms of glutamine synthetase. Altogether, our results provide new insights into plant metabolism.

  20. Evidence of weak land-atmosphere coupling under varying bare soil conditions: Are fully coupled Darcy/Navier-Stokes models necessary for simulating soil moisture dynamics?

    Science.gov (United States)

    Illangasekare, T. H.; Trautz, A. C.; Howington, S. E.; Cihan, A.

    2017-12-01

    It is a well-established fact that the land and atmosphere form a continuum in which the individual domains are coupled by heat and mass transfer processes such as bare-soil evaporation. Soil moisture dynamics can be simulated at the representative elementary volume (REV) scale using decoupled and fully coupled Darcy/Navier-Stokes models. Decoupled modeling is an asynchronous approach in which flow and transport in the soil and atmosphere is simulated independently; the two domains are coupled out of time-step via prescribed flux parameterizations. Fully coupled modeling in contrast, solves the governing equations for flow and transport in both domains simultaneously with the use of coupling interface boundary conditions. This latter approach, while being able to provide real-time two-dimensional feedbacks, is considerably more complex and computationally intensive. In this study, we investigate whether fully coupled models are necessary, or if the simpler decoupled models can sufficiently capture soil moisture dynamics under varying land preparations. A series of intermediate-scale physical and numerical experiments were conducted in which soil moisture distributions and evaporation estimates were monitored at high spatiotemporal resolutions for different heterogeneous packing and soil roughness scenarios. All experimentation was conducted at the newly developed Center for Experimental Study of Subsurface Environmental Processes (CESEP) wind tunnel-porous media user test-facility at the Colorado School of. Near-surface atmospheric measurements made during the experiments demonstrate that the land-atmosphere coupling was relatively weak and insensitive to the applied edaphic and surface conditions. Simulations with a decoupled multiphase heat and mass transfer model similarly show little sensitivity to local variations in atmospheric forcing; a single, simple flux parameterization can sufficiently capture the soil moisture dynamics (evaporation and redistribution

  1. Time-varying Crash Risk

    DEFF Research Database (Denmark)

    Christoffersen, Peter; Feunoua, Bruno; Jeon, Yoontae

    We estimate a continuous-time model with stochastic volatility and dynamic crash probability for the S&P 500 index and find that market illiquidity dominates other factors in explaining the stock market crash risk. While the crash probability is time-varying, its dynamic depends only weakly...

  2. Behaviour and modelling of aluminium alloy AA6060 subjected to a wide range of strain rates and temperatures

    Directory of Open Access Journals (Sweden)

    Vilamosa Vincent

    2015-01-01

    Full Text Available The thermo-mechanical behaviour in tension of an as-cast and homogenized AA6060 alloy was investigated at a wide range of strains (the entire deformation process up to fracture, strain rates (0.01–750 s−1 and temperatures (20–350 ∘C. The tests at strain rates up to 1 s−1 were performed in a universal testing machine, while a split-Hopkinson tension bar (SHTB system was used for strain rates from 350 to 750 s−1. The samples were heated with an induction-based heating system. A typical feature of aluminium alloys at high temperatures is that necking occurs at a rather early stage of the deformation process. In order to determine the true stress-strain curve also after the onset of necking, all tests were instrumented with a digital camera. The experimental tests reveal that the AA6060 material has negligible strain-rate sensitivity (SRS for temperatures lower than 200 ∘C, while both yielding and work hardening exhibit a strong positive SRS at higher temperatures. The coupled strain-rate and temperature sensitivity is challenging to capture with most existing constitutive models. The paper presents an outline of a new semi-physical model that expresses the flow stress in terms of plastic strain, plastic strain rate and temperature. The parameters of the model were determined from the tests, and the stress-strain curves from the tests were compared with the predictions of the model. Good agreement was obtained over the entire strain rate and temperature range.

  3. AAV9 supports wide-scale transduction of the CNS and TDP-43 disease modeling in adult rats

    Directory of Open Access Journals (Sweden)

    Kasey L Jackson

    Full Text Available AAV9 has emerged as an efficient adeno-associated virus (AAV serotype for gene transfer to the central nervous system. We have used this technique to study aspects of amyotrophic lateral sclerosis (ALS by administering AAV encoding the ALS-related gene transactive response DNA binding protein of 43 kDa (TDP-43 to neonatal rats. However, inducing the expression in adult subjects would be preferable to mimic the adult onset of symptoms in ALS. We expressed either green fluorescent protein (GFP or TDP-43 in adult rats after an intravenous (i.v. route of administration to attempt wide-scale transduction of the spinal cord for disease modeling. In order to optimize the gene transfer, we made comparisons of efficiency by age, gender, and across several AAV serotypes (AAV1, AAV8, AAV9, and AAV10. The data indicate more efficient neuronal transduction in neonates, with little evidence of glial transduction at either age, no gender-related differences in transduction, and that AAV9 was efficient in adults relative to the other serotypes tested. Based on these data, AAV9 TDP-43 was expressed at three vector doses in adult female rats yielding highly consistent, dose-dependent motor deficits. AAV9 can be delivered i.v. to adult rats to achieve consistent pathophysiological changes and a relevant adult-onset system for disease modeling.

  4. Systems genetics of obesity in an F2 pig model by genome-wide association, genetic network and pathway analyses

    Directory of Open Access Journals (Sweden)

    Lisette J. A. Kogelman

    2014-07-01

    Full Text Available Obesity is a complex condition with world-wide exponentially rising prevalence rates, linked with severe diseases like Type 2 Diabetes. Economic and welfare consequences have led to a raised interest in a better understanding of the biological and genetic background. To date, whole genome investigations focusing on single genetic variants have achieved limited success, and the importance of including genetic interactions is becoming evident. Here, the aim was to perform an integrative genomic analysis in an F2 pig resource population that was constructed with an aim to maximize genetic variation of obesity-related phenotypes and genotyped using the 60K SNP chip. Firstly, Genome Wide Association (GWA analysis was performed on the Obesity Index to locate candidate genomic regions that were further validated using combined Linkage Disequilibrium Linkage Analysis and investigated by evaluation of haplotype blocks. We built Weighted Interaction SNP Hub (WISH and differentially wired (DW networks using genotypic correlations amongst obesity-associated SNPs resulting from GWA analysis. GWA results and SNP modules detected by WISH and DW analyses were further investigated by functional enrichment analyses. The functional annotation of SNPs revealed several genes associated with obesity, e.g. NPC2 and OR4D10. Moreover, gene enrichment analyses identified several significantly associated pathways, over and above the GWA study results, that may influence obesity and obesity related diseases, e.g. metabolic processes. WISH networks based on genotypic correlations allowed further identification of various gene ontology terms and pathways related to obesity and related traits, which were not identified by the GWA study. In conclusion, this is the first study to develop a (genetic obesity index and employ systems genetics in a porcine model to provide important insights into the complex genetic architecture associated with obesity and many biological pathways

  5. Structural Characterization of de Novo Designed L5K5W Model Peptide Isomers with Potent Antimicrobial and Varied Hemolytic Activities

    Directory of Open Access Journals (Sweden)

    Sung-Jean Park

    2013-01-01

    Full Text Available In an effort to develop short antimicrobial peptides with simple amino acid compositions, we generated a series of undecapeptide isomers having the L5K5W formula. Amino acid sequences were designed to be perfectly amphipathic when folded into a helical conformation by converging leucines onto one side and lysines onto the other side of the helical axis. The single tryptophans, whose positions were varied in the primary structures, were located commonly at the critical amphipathic interface in the helical wheel projection. Helical conformations and the tryptophanyl environments of the 11 L5K5W peptides were confirmed and characterized by circular dichroism, fluorescence and nuclear magnetic resonance spectroscopy. All of the isomers exhibited a potent, broad-spectrum of antibacterial activity with just a slight variance in individual potency, whereas their hemolytic activities against human erythrocytes were significantly diversified. Interestingly, helical dispositions and fluorescence blue shifts of the peptides in aqueous trifluoroethanol solutions, rather than in detergent micelles, showed a marked linear correlation with their hemolytic potency. These results demonstrate that our de novo design strategy for amphipathic helical model peptides is effective for developing novel antimicrobial peptides and their hemolytic activities can be estimated in correlation with structural parameters.

  6. Structural characterization of de novo designed L5K5W model peptide isomers with potent antimicrobial and varied hemolytic activities.

    Science.gov (United States)

    Kim, Seo-Jin; Kim, Jae-Seok; Lee, Yoo-Sup; Sim, Dae-Won; Lee, Sung-Hee; Bahk, Young-Yil; Lee, Kwang-Ho; Kim, Eun-Hee; Park, Sung-Jean; Lee, Bong-Jin; Won, Hyung-Sik

    2013-01-11

    In an effort to develop short antimicrobial peptides with simple amino acid compositions, we generated a series of undecapeptide isomers having the L(5)K(5)W formula. Amino acid sequences were designed to be perfectly amphipathic when folded into a helical conformation by converging leucines onto one side and lysines onto the other side of the helical axis. The single tryptophans, whose positions were varied in the primary structures, were located commonly at the critical amphipathic interface in the helical wheel projection. Helical conformations and the tryptophanyl environments of the 11 L(5)K(5)W peptides were confirmed and characterized by circular dichroism, fluorescence and nuclear magnetic resonance spectroscopy. All of the isomers exhibited a potent, broad-spectrum of antibacterial activity with just a slight variance in individual potency, whereas their hemolytic activities against human erythrocytes were significantly diversified. Interestingly, helical dispositions and fluorescence blue shifts of the peptides in aqueous trifluoroethanol solutions, rather than in detergent micelles, showed a marked linear correlation with their hemolytic potency. These results demonstrate that our de novo design strategy for amphipathic helical model peptides is effective for developing novel antimicrobial peptides and their hemolytic activities can be estimated in correlation with structural parameters.

  7. Ex vivo evaluation of the biomechanical effect of varying monocortical screw numbers on a plate-rod canine femoral gap model.

    Science.gov (United States)

    Delisser, P J; McCombe, G P; Trask, R S; Etches, J A; German, A J; Holden, S L; Wallace, A M; Burton, N J

    2013-01-01

    To compare the biomechanical behaviour of plate-rod constructs with varying numbers of monocortical screws applied to an ex vivo canine femoral-gap ostectomy model. Twenty Greyhound dog cadaveric femurs. Bone mineral density (BMD) was assessed with dual x-ray absorptiometry. Bones were assigned to four groups. Bones had a 12-hole 3.5 mm locking compression plate with one bicortical non-locking cortical screw in the most proximal and distal plate holes and an intramedullary Steinmann pin applied across a 20 mm mid-diaphyseal ostectomy. Additionally, one to four monocortical non-locking cortical screws were then placed (Groups 1-4 respectively) in the proximal and distal fragments. Stiffness and axial collapse were determined before and after cyclic axial loading (6000 cycles at 20%, 40%, and 60% of mean bodyweight [total: 18000 cycles]). Constructs subsequently underwent an additional 45000 cycles at 60% of bodyweight (total: 63000 cycles). Loading to failure was then performed and ultimate load and mode of failure recorded. The BMD did not differ significantly between groups. Construct stiffness for group 1 was significantly less than group 4 (p = 0.008). Stiffness showed a linear increase with an increasing number of monocortical screws (p = 0.001). All constructs survived fatigue loading. Load-to-failure was not significantly different between groups. Mean load- to-failure of all groups was >1350N. Ex vivo canine large-breed femurs showed adequate stability biomechanically and gradually increasing stiffness with increasing monocortical screw numbers.

  8. Ultra wide band antennas

    CERN Document Server

    Begaud, Xavier

    2013-01-01

    Ultra Wide Band Technology (UWB) has reached a level of maturity that allows us to offer wireless links with either high or low data rates. These wireless links are frequently associated with a location capability for which ultimate accuracy varies with the inverse of the frequency bandwidth. Using time or frequency domain waveforms, they are currently the subject of international standards facilitating their commercial implementation. Drawing up a complete state of the art, Ultra Wide Band Antennas is aimed at students, engineers and researchers and presents a summary of internationally recog

  9. Transverse Crack Modeling of Continuously Casted Slabs through Finite Element Method in Roughing Rolling at Wide Strip Mill

    Science.gov (United States)

    Pesin, A.; Salganik, V.; Pustovoytov, D.

    2010-06-01

    In the pipe billet production at the wide strip mills of hot rolling big metal losses are caused by surface defects that affect most parts of the finished strips. The rolling surface defects are referred to the breach of steelmaking technology. Specialists mostly face defects of metal surface such as "scab" and "crack". The only area suffered from these defects is a slab edge. This area has the least surface temperature at the unbending of the continuous-casting machine, and together with deep buckles made by reciprocating motion of the crystallizer it is mostly subjected to transverse cracks that can be up to several millimeters. Each surface defect of the continuously casted slab will further turn into the surface defect of the strip bar. For some grade sets, mostly made of pipe steel grades the amount of strips with these defects can reach up to 60-70%. The area that is mostly prone to these defects is the edge of the strip. The work reveals investigation of the form change peculiarities in the transverse cracks of the continuously casted slab in roughing rolling in the horizontal rollers. The finite element method with software DEFORM 3D V6.1 has been applied in modeling. The work gives a form change mechanism of transverse cracks of slabs in deformation. Further crack growth in rolling is assessed due to Cockroft-Latham criteria.

  10. Genome-wide association study of the five-factor model of personality in young Korean women.

    Science.gov (United States)

    Kim, Han-Na; Roh, Seung-Ju; Sung, Yeon Ah; Chung, Hye Won; Lee, Jong-Young; Cho, Juhee; Shin, Hocheol; Kim, Hyung-Lae

    2013-10-01

    Personality is a determinant of behavior and lifestyle associated with health and human diseases. Although personality is known to be a heritable trait, its polygenic nature has made the identification of genetic variants elusive. We performed a genome-wide association study on 1089 Korean women aged 18-40 years whose personality traits were measured with the Revised NEO Personality Inventory for the five-factor model of personality. To reduce environmental factors that may influence personality traits, this study was restricted to young adult women. In the discovery phase, we identified variants of PTPRD (protein tyrosine phosphatase, receptor type D) that associated this gene with the Openness domain. Other genes that were previously reported to be associated with neurological phenotypes were also associated with personality traits. In particular, DRD1 and OR1A2 were linked to Neuroticism, NKAIN2 with Extraversion, HTR5A with Openness and DRD3 with Agreeableness. Data from our replication study of 2090 subjects confirmed the association between OR1A2 and Neuroticism. We first identified and confirmed a novel region on OR1A2 associated with Neuroticism [corrected]. Candidate genes for psychiatric disorders were also enriched. These findings contribute to our understanding of the genetic architecture of personality traits and provide critical clues to the neurobiological mechanisms that influence them.

  11. Development and evaluation of a connective tissue phantom model for subsurface visualization of cancers requiring wide local excision

    Science.gov (United States)

    Samkoe, Kimberley S.; Bates, Brent D.; Tselepidakis, Niki N.; DSouza, Alisha V.; Gunn, Jason R.; Ramkumar, Dipak B.; Paulsen, Keith D.; Pogue, Brian W.; Henderson, Eric R.

    2017-12-01

    Wide local excision (WLE) of tumors with negative margins remains a challenge because surgeons cannot directly visualize the mass. Fluorescence-guided surgery (FGS) may improve surgical accuracy; however, conventional methods with direct surface tumor visualization are not immediately applicable, and properties of tissues surrounding the cancer must be considered. We developed a phantom model for sarcoma resection with the near-infrared fluorophore IRDye 800CW and used it to iteratively define the properties of connective tissues that typically surround sarcoma tumors. We then tested the ability of a blinded surgeon to resect fluorescent tumor-simulating inclusions with ˜1-cm margins using predetermined target fluorescence intensities and a Solaris open-air fluorescence imaging system. In connective tissue-simulating phantoms, fluorescence intensity decreased with increasing blood concentration and increased with increasing intralipid concentrations. Fluorescent inclusions could be resolved at ≥1-cm depth in all inclusion concentrations and sizes tested. When inclusion depth was held constant, fluorescence intensity decreased with decreasing volume. Using targeted fluorescence intensities, a blinded surgeon was able to successfully excise inclusions with ˜1-cm margins from fat- and muscle-simulating phantoms with inclusion-to-background contrast ratios as low as 2∶1. Indirect, subsurface FGS is a promising tool for surgical resection of cancers requiring WLE.

  12. Local genealogies in a linear mixed model for genome-wide association mapping in complex pedigreed populations.

    Directory of Open Access Journals (Sweden)

    Goutam Sahana

    Full Text Available INTRODUCTION: The state-of-the-art for dealing with multiple levels of relationship among the samples in genome-wide association studies (GWAS is unified mixed model analysis (MMA. This approach is very flexible, can be applied to both family-based and population-based samples, and can be extended to incorporate other effects in a straightforward and rigorous fashion. Here, we present a complementary approach, called 'GENMIX (genealogy based mixed model' which combines advantages from two powerful GWAS methods: genealogy-based haplotype grouping and MMA. SUBJECTS AND METHODS: We validated GENMIX using genotyping data of Danish Jersey cattle and simulated phenotype and compared to the MMA. We simulated scenarios for three levels of heritability (0.21, 0.34, and 0.64, seven levels of MAF (0.05, 0.10, 0.15, 0.20, 0.25, 0.35, and 0.45 and five levels of QTL effect (0.1, 0.2, 0.5, 0.7 and 1.0 in phenotypic standard deviation unit. Each of these 105 possible combinations (3 h(2 x 7 MAF x 5 effects of scenarios was replicated 25 times. RESULTS: GENMIX provides a better ranking of markers close to the causative locus' location. GENMIX outperformed MMA when the QTL effect was small and the MAF at the QTL was low. In scenarios where MAF was high or the QTL affecting the trait had a large effect both GENMIX and MMA performed similarly. CONCLUSION: In discovery studies, where high-ranking markers are identified and later examined in validation studies, we therefore expect GENMIX to enrich candidates brought to follow-up studies with true positives over false positives more than the MMA would.

  13. Therapeutic analysis of high-dose-rate {sup 192}Ir vaginal cuff brachytherapy for endometrial cancer using a cylindrical target volume model and varied cancer cell distributions

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Hualin, E-mail: hualin.zhang@northwestern.edu; Donnelly, Eric D.; Strauss, Jonathan B. [Department of Radiation Oncology, Robert H. Lurie Comprehensive Cancer Center, Northwestern University Feinberg School of Medicine, Northwestern Memorial Hospital, Chicago, Illinois 60611 (United States); Qi, Yujin [Centre for Medical Radiation Physics, University of Wollongong, Wollongong, NSW 2522 (Australia)

    2016-01-15

    Purpose: To evaluate high-dose-rate (HDR) vaginal cuff brachytherapy (VCBT) in the treatment of endometrial cancer in a cylindrical target volume with either a varied or a constant cancer cell distributions using the linear quadratic (LQ) model. Methods: A Monte Carlo (MC) technique was used to calculate the 3D dose distribution of HDR VCBT over a variety of cylinder diameters and treatment lengths. A treatment planning system (TPS) was used to make plans for the various cylinder diameters, treatment lengths, and prescriptions using the clinical protocol. The dwell times obtained from the TPS were fed into MC. The LQ model was used to evaluate the therapeutic outcome of two brachytherapy regimens prescribed either at 0.5 cm depth (5.5 Gy × 4 fractions) or at the vaginal mucosal surface (8.8 Gy × 4 fractions) for the treatment of endometrial cancer. An experimentally determined endometrial cancer cell distribution, which showed a varied and resembled a half-Gaussian distribution, was used in radiobiology modeling. The equivalent uniform dose (EUD) to cancer cells was calculated for each treatment scenario. The therapeutic ratio (TR) was defined by comparing VCBT with a uniform dose radiotherapy plan in term of normal cell survival at the same level of cancer cell killing. Calculations of clinical impact were run twice assuming two different types of cancer cell density distributions in the cylindrical target volume: (1) a half-Gaussian or (2) a uniform distribution. Results: EUDs were weakly dependent on cylinder size, treatment length, and the prescription depth, but strongly dependent on the cancer cell distribution. TRs were strongly dependent on the cylinder size, treatment length, types of the cancer cell distributions, and the sensitivity of normal tissue. With a half-Gaussian distribution of cancer cells which populated at the vaginal mucosa the most, the EUDs were between 6.9 Gy × 4 and 7.8 Gy × 4, the TRs were in the range from (5.0){sup 4} to (13

  14. Therapeutic analysis of high-dose-rate 192Ir vaginal cuff brachytherapy for endometrial cancer using a cylindrical target volume model and varied cancer cell distributions

    Science.gov (United States)

    Zhang, Hualin; Donnelly, Eric D.; Strauss, Jonathan B.; Qi, Yujin

    2016-01-01

    Purpose: To evaluate high-dose-rate (HDR) vaginal cuff brachytherapy (VCBT) in the treatment of endometrial cancer in a cylindrical target volume with either a varied or a constant cancer cell distributions using the linear quadratic (LQ) model. Methods: A Monte Carlo (MC) technique was used to calculate the 3D dose distribution of HDR VCBT over a variety of cylinder diameters and treatment lengths. A treatment planning system (TPS) was used to make plans for the various cylinder diameters, treatment lengths, and prescriptions using the clinical protocol. The dwell times obtained from the TPS were fed into MC. The LQ model was used to evaluate the therapeutic outcome of two brachytherapy regimens prescribed either at 0.5 cm depth (5.5 Gy × 4 fractions) or at the vaginal mucosal surface (8.8 Gy × 4 fractions) for the treatment of endometrial cancer. An experimentally determined endometrial cancer cell distribution, which showed a varied and resembled a half-Gaussian distribution, was used in radiobiology modeling. The equivalent uniform dose (EUD) to cancer cells was calculated for each treatment scenario. The therapeutic ratio (TR) was defined by comparing VCBT with a uniform dose radiotherapy plan in term of normal cell survival at the same level of cancer cell killing. Calculations of clinical impact were run twice assuming two different types of cancer cell density distributions in the cylindrical target volume: (1) a half-Gaussian or (2) a uniform distribution. Results: EUDs were weakly dependent on cylinder size, treatment length, and the prescription depth, but strongly dependent on the cancer cell distribution. TRs were strongly dependent on the cylinder size, treatment length, types of the cancer cell distributions, and the sensitivity of normal tissue. With a half-Gaussian distribution of cancer cells which populated at the vaginal mucosa the most, the EUDs were between 6.9 Gy × 4 and 7.8 Gy × 4, the TRs were in the range from (5.0)4 to (13.4)4 for the

  15. Therapeutic analysis of high-dose-rate (192)Ir vaginal cuff brachytherapy for endometrial cancer using a cylindrical target volume model and varied cancer cell distributions.

    Science.gov (United States)

    Zhang, Hualin; Donnelly, Eric D; Strauss, Jonathan B; Qi, Yujin

    2016-01-01

    To evaluate high-dose-rate (HDR) vaginal cuff brachytherapy (VCBT) in the treatment of endometrial cancer in a cylindrical target volume with either a varied or a constant cancer cell distributions using the linear quadratic (LQ) model. A Monte Carlo (MC) technique was used to calculate the 3D dose distribution of HDR VCBT over a variety of cylinder diameters and treatment lengths. A treatment planning system (TPS) was used to make plans for the various cylinder diameters, treatment lengths, and prescriptions using the clinical protocol. The dwell times obtained from the TPS were fed into MC. The LQ model was used to evaluate the therapeutic outcome of two brachytherapy regimens prescribed either at 0.5 cm depth (5.5 Gy × 4 fractions) or at the vaginal mucosal surface (8.8 Gy × 4 fractions) for the treatment of endometrial cancer. An experimentally determined endometrial cancer cell distribution, which showed a varied and resembled a half-Gaussian distribution, was used in radiobiology modeling. The equivalent uniform dose (EUD) to cancer cells was calculated for each treatment scenario. The therapeutic ratio (TR) was defined by comparing VCBT with a uniform dose radiotherapy plan in term of normal cell survival at the same level of cancer cell killing. Calculations of clinical impact were run twice assuming two different types of cancer cell density distributions in the cylindrical target volume: (1) a half-Gaussian or (2) a uniform distribution. EUDs were weakly dependent on cylinder size, treatment length, and the prescription depth, but strongly dependent on the cancer cell distribution. TRs were strongly dependent on the cylinder size, treatment length, types of the cancer cell distributions, and the sensitivity of normal tissue. With a half-Gaussian distribution of cancer cells which populated at the vaginal mucosa the most, the EUDs were between 6.9 Gy × 4 and 7.8 Gy × 4, the TRs were in the range from (5.0)(4) to (13.4)(4) for the radiosensitive normal

  16. Genome-wide analysis of Aux/IAA gene family in Solanaceae species using tomato as a model.

    Science.gov (United States)

    Wu, Jian; Peng, Zhen; Liu, Songyu; He, Yanjun; Cheng, Lin; Kong, Fuling; Wang, Jie; Lu, Gang

    2012-04-01

    Auxin plays key roles in a wide variety of plant activities, including embryo development, leaf formation, phototropism, fruit development and root initiation and development. Auxin/indoleacetic acid (Aux/IAA) genes, encoding short-lived nuclear proteins, are key regulators in the auxin transduction pathway. But how they work is still unknown. In order to conduct a systematic analysis of this gene family in Solanaceae species, a genome-wide search for the homologues of auxin response genes was carried out. Here, 26 and 27 non redundant AUX/IAAs were identified in tomato and potato, respectively. Using tomato as a model, a comprehensive overview of SlIAA gene family is presented, including the gene structures, phylogeny, chromosome locations, conserved motifs and cis-elements in promoter sequences. A phylogenetic tree generated from alignments of the predicted protein sequences of 31 OsIAAs, 29 AtIAAs, 31 ZmIAAs, and 26 SlIAAs revealed that these IAAs were clustered into three major groups and ten subgroups. Among them, seven subgroups were present in both monocot and dicot species, which indicated that the major functional diversification within the IAA family predated the monocot/dicot divergence. In contrast, group C and some other subgroups seemed to be species-specific. Quantitative real-time PCR (qRT-PCR) analysis showed that 19 of the 26 SlIAA genes could be detected in all tomato organs/tissues, however, seven of them were specifically expressed in some of tomato tissues. The transcript abundance of 17 SlIAA genes were increased within a few hours when the seedlings were treated with exogenous IAA. However, those of other six SlIAAs were decreased. The results of stress treatments showed that most SIIAA family genes responded to at least one of the three stress treatments, however, they exhibited diverse expression levels under different abiotic stress conditions in tomato seedlings. SlIAA20, SlIAA21 and SlIAA22 were not significantly influenced by stress

  17. Validation of a Monte Carlo model used for simulating tube current modulation in computed tomography over a wide range of phantom conditions/challenges

    Energy Technology Data Exchange (ETDEWEB)

    Bostani, Maryam, E-mail: mbostani@mednet.ucla.edu; McMillan, Kyle; Cagnon, Chris H.; McNitt-Gray, Michael F. [Departments of Biomedical Physics and Radiology, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90024 (United States); DeMarco, John J. [Department of Radiation Oncology, University of California, Los Angeles, Los Angeles, California 90095 (United States)

    2014-11-01

    Purpose: Monte Carlo (MC) simulation methods have been widely used in patient dosimetry in computed tomography (CT), including estimating patient organ doses. However, most simulation methods have undergone a limited set of validations, often using homogeneous phantoms with simple geometries. As clinical scanning has become more complex and the use of tube current modulation (TCM) has become pervasive in the clinic, MC simulations should include these techniques in their methodologies and therefore should also be validated using a variety of phantoms with different shapes and material compositions to result in a variety of differently modulated tube current profiles. The purpose of this work is to perform the measurements and simulations to validate a Monte Carlo model under a variety of test conditions where fixed tube current (FTC) and TCM were used. Methods: A previously developed MC model for estimating dose from CT scans that models TCM, built using the platform of MCNPX, was used for CT dose quantification. In order to validate the suitability of this model to accurately simulate patient dose from FTC and TCM CT scan, measurements and simulations were compared over a wide range of conditions. Phantoms used for testing range from simple geometries with homogeneous composition (16 and 32 cm computed tomography dose index phantoms) to more complex phantoms including a rectangular homogeneous water equivalent phantom, an elliptical shaped phantom with three sections (where each section was a homogeneous, but different material), and a heterogeneous, complex geometry anthropomorphic phantom. Each phantom requires varying levels of x-, y- and z-modulation. Each phantom was scanned on a multidetector row CT (Sensation 64) scanner under the conditions of both FTC and TCM. Dose measurements were made at various surface and depth positions within each phantom. Simulations using each phantom were performed for FTC, detailed x–y–z TCM, and z-axis-only TCM to obtain

  18. Validation of a Monte Carlo model used for simulating tube current modulation in computed tomography over a wide range of phantom conditions/challenges.

    Science.gov (United States)

    Bostani, Maryam; McMillan, Kyle; DeMarco, John J; Cagnon, Chris H; McNitt-Gray, Michael F

    2014-11-01

    Monte Carlo (MC) simulation methods have been widely used in patient dosimetry in computed tomography (CT), including estimating patient organ doses. However, most simulation methods have undergone a limited set of validations, often using homogeneous phantoms with simple geometries. As clinical scanning has become more complex and the use of tube current modulation (TCM) has become pervasive in the clinic, MC simulations should include these techniques in their methodologies and therefore should also be validated using a variety of phantoms with different shapes and material compositions to result in a variety of differently modulated tube current profiles. The purpose of this work is to perform the measurements and simulations to validate a Monte Carlo model under a variety of test conditions where fixed tube current (FTC) and TCM were used. A previously developed MC model for estimating dose from CT scans that models TCM, built using the platform of mcnpx, was used for CT dose quantification. In order to validate the suitability of this model to accurately simulate patient dose from FTC and TCM CT scan, measurements and simulations were compared over a wide range of conditions. Phantoms used for testing range from simple geometries with homogeneous composition (16 and 32 cm computed tomography dose index phantoms) to more complex phantoms including a rectangular homogeneous water equivalent phantom, an elliptical shaped phantom with three sections (where each section was a homogeneous, but different material), and a heterogeneous, complex geometry anthropomorphic phantom. Each phantom requires varying levels of x-, y- and z-modulation. Each phantom was scanned on a multidetector row CT (Sensation 64) scanner under the conditions of both FTC and TCM. Dose measurements were made at various surface and depth positions within each phantom. Simulations using each phantom were performed for FTC, detailed x-y-z TCM, and z-axis-only TCM to obtain dose estimates. This

  19. Validation of a Monte Carlo model used for simulating tube current modulation in computed tomography over a wide range of phantom conditions/challenges

    International Nuclear Information System (INIS)

    Bostani, Maryam; McMillan, Kyle; Cagnon, Chris H.; McNitt-Gray, Michael F.; DeMarco, John J.

    2014-01-01

    Purpose: Monte Carlo (MC) simulation methods have been widely used in patient dosimetry in computed tomography (CT), including estimating patient organ doses. However, most simulation methods have undergone a limited set of validations, often using homogeneous phantoms with simple geometries. As clinical scanning has become more complex and the use of tube current modulation (TCM) has become pervasive in the clinic, MC simulations should include these techniques in their methodologies and therefore should also be validated using a variety of phantoms with different shapes and material compositions to result in a variety of differently modulated tube current profiles. The purpose of this work is to perform the measurements and simulations to validate a Monte Carlo model under a variety of test conditions where fixed tube current (FTC) and TCM were used. Methods: A previously developed MC model for estimating dose from CT scans that models TCM, built using the platform of MCNPX, was used for CT dose quantification. In order to validate the suitability of this model to accurately simulate patient dose from FTC and TCM CT scan, measurements and simulations were compared over a wide range of conditions. Phantoms used for testing range from simple geometries with homogeneous composition (16 and 32 cm computed tomography dose index phantoms) to more complex phantoms including a rectangular homogeneous water equivalent phantom, an elliptical shaped phantom with three sections (where each section was a homogeneous, but different material), and a heterogeneous, complex geometry anthropomorphic phantom. Each phantom requires varying levels of x-, y- and z-modulation. Each phantom was scanned on a multidetector row CT (Sensation 64) scanner under the conditions of both FTC and TCM. Dose measurements were made at various surface and depth positions within each phantom. Simulations using each phantom were performed for FTC, detailed x–y–z TCM, and z-axis-only TCM to obtain

  20. Genome-Wide Screen for Saccharomyces cerevisiae Genes Contributing to Opportunistic Pathogenicity in an Invertebrate Model Host

    Directory of Open Access Journals (Sweden)

    Sujal S. Phadke

    2018-01-01

    Full Text Available Environmental opportunistic pathogens can exploit vulnerable hosts through expression of traits selected for in their natural environments. Pathogenicity is itself a complicated trait underpinned by multiple complex traits, such as thermotolerance, morphology, and stress response. The baker’s yeast, Saccharomyces cerevisiae, is a species with broad environmental tolerance that has been increasingly reported as an opportunistic pathogen of humans. Here we leveraged the genetic resources available in yeast and a model insect species, the greater waxmoth Galleria mellonella, to provide a genome-wide analysis of pathogenicity factors. Using serial passaging experiments of genetically marked wild-type strains, a hybrid strain was identified as the most fit genotype across all replicates. To dissect the genetic basis for pathogenicity in the hybrid isolate, bulk segregant analysis was performed which revealed eight quantitative trait loci significantly differing between the two bulks with alleles from both parents contributing to pathogenicity. A second passaging experiment with a library of deletion mutants for most yeast genes identified a large number of mutations whose relative fitness differed in vivo vs. in vitro, including mutations in genes controlling cell wall integrity, mitochondrial function, and tyrosine metabolism. Yeast is presumably subjected to a massive assault by the innate insect immune system that leads to melanization of the host and to a large bottleneck in yeast population size. Our data support that resistance to the innate immune response of the insect is key to survival in the host and identifies shared genetic mechanisms between S. cerevisiae and other opportunistic fungal pathogens.

  1. Spatiotemporal Diversification of the True Frogs (Genus Rana): A Historical Framework for a Widely Studied Group of Model Organisms.

    Science.gov (United States)

    Yuan, Zhi-Yong; Zhou, Wei-Wei; Chen, Xin; Poyarkov, Nikolay A; Chen, Hong-Man; Jang-Liaw, Nian-Hong; Chou, Wen-Hao; Matzke, Nicholas J; Iizuka, Koji; Min, Mi-Sook; Kuzmin, Sergius L; Zhang, Ya-Ping; Cannatella, David C; Hillis, David M; Che, Jing

    2016-09-01

    True frogs of the genus Rana are widely used as model organisms in studies of development, genetics, physiology, ecology, behavior, and evolution. Comparative studies among the more than 100 species of Rana rely on an understanding of the evolutionary history and patterns of diversification of the group. We estimate a well-resolved, time-calibrated phylogeny from sequences of six nuclear and three mitochondrial loci sampled from most species of Rana, and use that phylogeny to clarify the group's diversification and global biogeography. Our analyses consistently support an "Out of Asia" pattern with two independent dispersals of Rana from East Asia to North America via Beringian land bridges. The more species-rich lineage of New World Rana appears to have experienced a rapid radiation following its colonization of the New World, especially with its expansion into montane and tropical areas of Mexico, Central America, and South America. In contrast, Old World Rana exhibit different trajectories of diversification; diversification in the Old World began very slowly and later underwent a distinct increase in speciation rate around 29-18 Ma. Net diversification is associated with environmental changes and especially intensive tectonic movements along the Asian margin from the Oligocene to early Miocene. Our phylogeny further suggests that previous classifications were misled by morphological homoplasy and plesiomorphic color patterns, as well as a reliance primarily on mitochondrial genes. We provide a phylogenetic taxonomy based on analyses of multiple nuclear and mitochondrial gene loci. [Amphibians; biogeography; diversification rate; Holarctic; transcontinental dispersal. © The Author(s) 2016. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  2. Modelling human regulatory variation in mouse: finding the function in genome-wide association studies and whole-genome sequencing.

    Directory of Open Access Journals (Sweden)

    Jean-François Schmouth

    Full Text Available An increasing body of literature from genome-wide association studies and human whole-genome sequencing highlights the identification of large numbers of candidate regulatory variants of potential therapeutic interest in numerous diseases. Our relatively poor understanding of the functions of non-coding genomic sequence, and the slow and laborious process of experimental validation of the functional significance of human regulatory variants, limits our ability to fully benefit from this information in our efforts to comprehend human disease. Humanized mouse models (HuMMs, in which human genes are introduced into the mouse, suggest an approach to this problem. In the past, HuMMs have been used successfully to study human disease variants; e.g., the complex genetic condition arising from Down syndrome, common monogenic disorders such as Huntington disease and β-thalassemia, and cancer susceptibility genes such as BRCA1. In this commentary, we highlight a novel method for high-throughput single-copy site-specific generation of HuMMs entitled High-throughput Human Genes on the X Chromosome (HuGX. This method can be applied to most human genes for which a bacterial artificial chromosome (BAC construct can be derived and a mouse-null allele exists. This strategy comprises (1 the use of recombineering technology to create a human variant-harbouring BAC, (2 knock-in of this BAC into the mouse genome using Hprt docking technology, and (3 allele comparison by interspecies complementation. We demonstrate the throughput of the HuGX method by generating a series of seven different alleles for the human NR2E1 gene at Hprt. In future challenges, we consider the current limitations of experimental approaches and call for a concerted effort by the genetics community, for both human and mouse, to solve the challenge of the functional analysis of human regulatory variation.

  3. Multilocus genetic models of handedness closely resemble single-locus models in explaining family data and are compatible with genome-wide association studies.

    Science.gov (United States)

    McManus, I C; Davison, Angus; Armour, John A L

    2013-06-01

    Right- and left-handedness run in families, show greater concordance in monozygotic than dizygotic twins, and are well described by single-locus Mendelian models. Here we summarize a large genome-wide association study (GWAS) that finds no significant associations with handedness and is consistent with a meta-analysis of GWASs. The GWAS had 99% power to detect a single locus using the conventional criterion of P < 5 × 10(-8) for the single locus models of McManus and Annett. The strong conclusion is that handedness is not controlled by a single genetic locus. A consideration of the genetic architecture of height, primary ciliary dyskinesia, and intelligence suggests that handedness inheritance can be explained by a multilocus variant of the McManus DC model, classical effects on family and twins being barely distinguishable from the single locus model. Based on the ENGAGE meta-analysis of GWASs, we estimate at least 40 loci are involved in determining handedness. © 2013 New York Academy of Sciences.

  4. Improved Models and Tools for Prediction of Radiation Effects on Space Electronics in Wide Temperature Range, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — All NASA exploration systems operate in the extreme environments of space and require reliable electronics capable of handling a wide temperature range (-180ºC to...

  5. Improved Models and Tools for Prediction of Radiation Effects on Space Electronics in Wide Temperature Range, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — All NASA exploration systems operate in the extreme environments of space (Moon, Mars, etc.) and require reliable electronics capable of handling a wide temperature...

  6. Improved Models and Tools for Prediction of Radiation Effects on Space Electronics in Wide Temperature Range Project

    Data.gov (United States)

    National Aeronautics and Space Administration — All NASA exploration systems operate in the extreme environments of space (Moon, Mars, etc.) and require reliable electronics capable of handling a wide temperature...

  7. Smoothly Varying Bright Blazars

    Science.gov (United States)

    Van Alfen, Nicholas; Hindman, Lauren; Moody, Joseph Ward; Biancardi, Rochelle; Whipple, Parkes; Gaunt, Caleb

    2018-01-01

    It is becoming increasingly apparent that blazar light can vary sinusoidally with periods of hundreds of days to tens of years. Such behavior is expected of, among other things, jets coming from binary black holes. To look for general variability in lesser-known blazars and AGN, in 2015-2016 we monitored 182 objects with Johnson V-band magnitudes reported as being < 16. In all, this campaign generated 22,000 frames from 2,000 unique pointings. We find that approximately one dozen of these objects show evidence of smooth variability consistent with sinusoidal periods. We report on the entire survey sample, highlighting those that show sinusoidal variations.

  8. Model-supported estimation of mortality rates in Baltic cod (Gadus morhua callarias L. larvae: the varying impact of 'critical periods'

    Directory of Open Access Journals (Sweden)

    Hinrichsen Hans-Harald

    2001-11-01

    Full Text Available Abstract Background Changes in the survival-rate during the larval phase may strongly influence the recruitment level in marine fish species. During the larval phase different 'critical periods' are discussed, e.g. the hatching period and the first-feeding period. No such information was available for the Baltic cod stock, a commercially important stock showing reproduction failure during the last years. We calculated field-based mortality rates for larval Baltic cod during these phases using basin-wide abundance estimates from two consecutive surveys. Survey information was corrected by three dimensional hydrodynamic model runs. Results The corrections applied for transport were of variable impact, depending on the prevailing circulation patterns. Especially at high wind forcing scenarios, abundance estimates have the potential to be biased without accounting for transport processes. In May 1988 mortality between hatch and first feeding amounted to approximately 20% per day. Mortality rates during the onset of feeding were considerably lower with only 7% per day. In August 1991 the situation was vice versa: Extremely low mortality rates of 0.08% per day were calculated between hatch and first feeding, while the period between the onset of feeding to the state of an established feeder was more critical with mortality rates of 22% per day. Conclusions Mortality rates during the different proposed 'critical periods' were found to be highly variable. Survival rates of Baltic cod are not only influenced by a single 'critical period', but can be limited at different points during the larval phase, depending on several biotic and abiotic factors.

  9. Small variations in multiple parameters account for wide variations in HIV-1 set-points: a novel modelling approach

    NARCIS (Netherlands)

    Müller, Viktor; Marée, Athanasius F.M.; Boer, R.J. de

    2000-01-01

    Steady-state levels of HIV-1 viraemia in the plasma vary more than a 1000-fold between HIV-positive patients and are thought to be influenced by several di¡erent host and viral factors such as host target cell availability, host anti-HIV immune response and the virulence of the virus. Previous

  10. Practical Wide-speed-range Sensorless Control System for Permanent Magnet Reluctance Synchronous Motor Drives via Active Flux Model

    DEFF Research Database (Denmark)

    Ancuti, Mihaela Codruta; Tutelea, Lucian; Andreescu, Gheorghe-Daniel

    2014-01-01

    This article introduces a control strategy to obtain near-maximum available torque in a wide speed range with sensorless operation via the active flux concept for permanent magnet-reluctance synchronous motor drives. A new torque dq current reference calculator is proposed, with reference torque...... digital simulation results (1–6000 rpm) and experimental results (50–3000 rpm at low inverter available DC voltage of 12 Vdc instead of 48 Vdc) demonstrate the effectiveness of the proposed sensorless control strategy in a wide speed range, with stable and reliable operations up to a speed equal to eight...

  11. Merging Empiricism and Humanism: Role of Social Validity in the School-Wide Positive Behavior Support Model

    Science.gov (United States)

    Marchant, Michelle; Heath, Melissa Allen; Miramontes, Nancy Y.

    2013-01-01

    Criteria for evaluating behavior support programs are changing. Consumer-based educational and behavioral programs, such as School-Wide Positive Behavior Support (SWPBS), are particularly influenced by consumer opinion. Unfortunately, the need for and use of social validity measures have not received adequate attention in the empirical literature…

  12. Principal Leadership and School Culture with a School-Wide Implementation of Professional Crisis Management: A Redemptive v. Punitive Model

    Science.gov (United States)

    Adams, Mark Thomas

    2013-01-01

    This qualitative study investigated the nature of the relationship between principal leadership and school culture within a school-wide implementation of Professional Crisis Management (PCM). PCM is a comprehensive and fully integrated system designed to manage crisis situations effectively, safely, and with dignity. While designed primarily to…

  13. Combine TV-L1 model with guided image filtering for wide and faint ring artifacts correction of in-line x-ray phase contrast computed tomography.

    Science.gov (United States)

    Ji, Dongjiang; Qu, Gangrong; Hu, Chunhong; Zhao, Yuqing; Chen, Xiaodong

    2018-01-01

    In practice, mis-calibrated detector pixels give rise to wide and faint ring artifacts in the reconstruction image of the In-line phase-contrast computed tomography (IL-PC-CT). Ring artifacts correction is essential in IL-PC-CT. In this study, a novel method of wide and faint ring artifacts correction was presented based on combining TV-L1 model with guided image filtering (GIF) in the reconstruction image domain. The new correction method includes two main steps namely, the GIF step and the TV-L1 step. To validate the performance of this method, simulation data and real experimental synchrotron data are provided. The results demonstrate that TV-L1 model with GIF step can effectively correct the wide and faint ring artifacts for IL-PC-CT.

  14. Coupling age-structured stock assessment and fish bioenergetics models: a system of time-varying models for quantifying piscivory patterns during the rapid trophic shift in the main basin of Lake Huron

    Science.gov (United States)

    He, Ji X.; Bence, James R.; Madenjian, Charles P.; Pothoven, Steven A.; Dobiesz, Norine E.; Fielder, David G.; Johnson, James E.; Ebener, Mark P.; Cottrill, Adam R.; Mohr, Lloyd C.; Koproski, Scott R.

    2015-01-01

    We quantified piscivory patterns in the main basin of Lake Huron during 1984–2010 and found that the biomass transfer from prey fish to piscivores remained consistently high despite the rapid major trophic shift in the food webs. We coupled age-structured stock assessment models and fish bioenergetics models for lake trout (Salvelinus namaycush), Chinook salmon (Oncorhynchus tshawytscha), walleye (Sander vitreus), and lake whitefish (Coregonus clupeaformis). The model system also included time-varying parameters or variables of growth, length–mass relations, maturity schedules, energy density, and diets. These time-varying models reflected the dynamic connections that a fish cohort responded to year-to-year ecosystem changes at different ages and body sizes. We found that the ratio of annual predation by lake trout, Chinook salmon, and walleye combined with the biomass indices of age-1 and older alewives (Alosa pseudoharengus) and rainbow smelt (Osmerus mordax) increased more than tenfold during 1987–2010, and such increases in predation pressure were structured by relatively stable biomass of the three piscivores and stepwise declines in the biomass of alewives and rainbow smelt. The piscivore stability was supported by the use of alternative energy pathways and changes in relative composition of the three piscivores. In addition, lake whitefish became a new piscivore by feeding on round goby (Neogobius melanostomus). Their total fish consumption rivaled that of the other piscivores combined, although fish were still a modest proportion of their diet. Overall, the use of alternative energy pathways by piscivores allowed the increases in predation pressure on dominant diet species.

  15. Systems genetics of obesity in an F2 pig model by genome-wide association, genetic network and pathway analyses

    DEFF Research Database (Denmark)

    Kogelman, Lisette; Pant, Sameer Dinkar; Fredholm, Merete

    2014-01-01

    Obesity is a complex condition with world-wide exponentially rising prevalence rates, linked with severe diseases like Type 2 Diabetes. Economic and welfare consequences have led to a raised interest in a better understanding of the biological and genetic background. To date, whole genome...... of obesity-related phenotypes and genotyped using the 60K SNP chip. Firstly, Genome Wide Association (GWA) analysis was performed on the Obesity Index to locate candidate genomic regions that were further validated using combined Linkage Disequilibrium Linkage Analysis and investigated by evaluation...... of haplotype blocks. We built Weighted Interaction SNP Hub (WISH) and differentially wired (DW) networks using genotypic correlations amongst obesity-associated SNPs resulting from GWA analysis. GWA results and SNP modules detected by WISH and DW analyses were further investigated by functional enrichment...

  16. Understanding N2O formation mechanisms through sensitivity analyses using a plant-wide benchmark simulation model

    DEFF Research Database (Denmark)

    Boiocchi, Riccardo; Gernaey, Krist; Sin, Gürkan

    2017-01-01

    In the present work, sensitivity analyses are performed on a plant-wide model incorporating the typical treatment unit of a full-scale wastewater treatment plant and N2O production and emission dynamics. The influence of operating temperatureis investigated. The results are exploited to identify...

  17. A Mathematical Model of Hourly Solar Radiation in Varying Weather Conditions for a Dynamic Simulation of the Solar Organic Rankine Cycle

    Directory of Open Access Journals (Sweden)

    Taehong Sung

    2015-07-01

    Full Text Available A mathematical model of hourly solar radiation with weather variability is proposed based on the simple sky model. The model uses a superposition of trigonometric functions with short and long periods. We investigate the effects of the model variables on the clearness (kD and the probability of persistence (POPD indices and also evaluate the proposed model for all of the kD-POPD weather classes. A simple solar organic Rankine cycle (SORC system with thermal storage is simulated using the actual weather conditions, and then, the results are compared with the simulation results using the proposed model and the simple sky model. The simulation results show that the proposed model provides more accurate system operation characteristics than the simple sky model.

  18. Wrong, but useful: regional species distribution models may not be improved by range-wide data under biased sampling.

    Science.gov (United States)

    El-Gabbas, Ahmed; Dormann, Carsten F

    2018-02-01

    Species distribution modeling (SDM) is an essential method in ecology and conservation. SDMs are often calibrated within one country's borders, typically along a limited environmental gradient with biased and incomplete data, making the quality of these models questionable. In this study, we evaluated how adequate are national presence-only data for calibrating regional SDMs. We trained SDMs for Egyptian bat species at two different scales: only within Egypt and at a species-specific global extent. We used two modeling algorithms: Maxent and elastic net, both under the point-process modeling framework. For each modeling algorithm, we measured the congruence of the predictions of global and regional models for Egypt, assuming that the lower the congruence, the lower the appropriateness of the Egyptian dataset to describe the species' niche. We inspected the effect of incorporating predictions from global models as additional predictor ("prior") to regional models, and quantified the improvement in terms of AUC and the congruence between regional models run with and without priors. Moreover, we analyzed predictive performance improvements after correction for sampling bias at both scales. On average, predictions from global and regional models in Egypt only weakly concur. Collectively, the use of priors did not lead to much improvement: similar AUC and high congruence between regional models calibrated with and without priors. Correction for sampling bias led to higher model performance, whatever prior used, making the use of priors less pronounced. Under biased and incomplete sampling, the use of global bats data did not improve regional model performance. Without enough bias-free regional data, we cannot objectively identify the actual improvement of regional models after incorporating information from the global niche. However, we still believe in great potential for global model predictions to guide future surveys and improve regional sampling in data

  19. An integrated end-to-end modeling framework for testing ecosystem-wide effects of human-induced pressures in the Baltic Sea

    DEFF Research Database (Denmark)

    Palacz, Artur; Nielsen, J. Rasmus; Christensen, Asbjørn

    to the high-resolution coupled physical-biological model HBM-ERGOM and the fisheries bio-economic FishRent model. We investigate ecosystem-wide responses to changes in human-induced pressures by simulating several eutrophication scenarios that are relevant to existing Baltic Sea management plans (e.g. EU BSAP......, EU CFP). We further present the structure and calibration of the Baltic ATLANTIS model and the operational linkage to the other models. Using the results of eutrophication scenarios, and focusing on the relative changes in fish and fishery production, we discuss the robustness of the model linking......We present an integrated end-to-end modeling framework that enables whole-of ecosystem climate, eutrophication, and spatial management scenario exploration in the Baltic Sea. The framework is built around the Baltic implementation of the spatially-explicit end-to-end ATLANTIS model, linked...

  20. Integrated management model. Methodology and software-enabled tood designed to assist a utility in developing a station-wide optimization

    International Nuclear Information System (INIS)

    Llovet, R.; Ibanez, R.; Woodcock, J.

    2005-01-01

    A key concern for utilities today is optimizing station aging and realibility management activities in a manner that maximizes the value of those activities withing an affordable budget. The Westinghouse Proactive Asset Management Model is a methodology and software-enabled tood designed to assist a utility in developing a station-wide optimization of those activities. The process and tool support the development of an optimized, station-wide plan for inspection, testing, maintenance, repaor and replacement of aging components. The optimization identifies the benefit and optimal timing of those activities based on minimizing unplanned outage costs (avoided costs) and maximizing station Net Present Value. (Author)

  1. Modelling and validation of a simple and compact wide upper stop band ultra-wideband bandpass filter

    Directory of Open Access Journals (Sweden)

    Somdotta Roy Choudhury

    2014-09-01

    Full Text Available A compact ultra-wideband (UWB bandpass filter (BPF is proposed based on end coupled microstrip transmission line, defected ground structure and defected microstrip structure. The experimental filter shows a fractional bandwidth of 110% at a centre frequency, with two observable transmission zeros (attenuation poles at 2.1 and 11.7 GHz. Measured results exhibit an UWB passband from 3.02 to 10.6 GHz with mid-band insertion loss of 1.8 dB and group delay variation <0.45 ns. The BPF achieves a wide stopband with < −18 dB attenuation up to 20 GHz.

  2. Assessing N emissions in surface water at the national level: comparison of country-wide vs. regionalized models.

    Science.gov (United States)

    Dupas, Rémi; Curie, Florence; Gascuel-Odoux, Chantal; Moatar, Florentina; Delmas, Magalie; Parnaudeau, Virginie; Durand, Patrick

    2013-01-15

    Many countries are developing models to estimate N emissions in rivers as part of national-scale water quality assessments. Generally, models are applied with national databases, while at the regional scale, more detailed databases are sometimes available. This paper discusses pros and cons of developing regionalized models versus applying countrywide models. A case study is used to support the discussion. The model used, called Nutting-N (NUTrient Transfer modelING-Nitrogen), relies on a statistical approach linking nitrogen sources and watershed land and river characteristics and aims to evaluate the risk of water bodies failing to reach quality objectives defined by national and federal policies. After calibration and evaluation at the national scale (France), the predictive quality of the model was compared with two regionalized models in a crystalline massif (Brittany, western France, 27,000 km(2)) and in a sedimentary basin (Seine, Paris basin, 78,000 km(2)), where detailed regional databases are available. The national-scale model provided robust predictions in most conditions encountered in France (efficiency=0.69). Terrestrial retention was related mainly to specific runoff, and its median value was estimated at 49% of the N surplus, whereas median river retention represented 18% of incoming N discharge. Regionalizing the model generally improved goodness-of-fit, as the root mean squared error was reduced by 6-24%. However, precision of parameter estimates degraded when too few monitoring basins were available or when variability in land and river characteristics was too low in the calibration dataset. Hence, regional-scale models should be advocated only after the trade-off between improvement of fit and degradation of parameter estimates is examined. Copyright © 2012 Elsevier B.V. All rights reserved.

  3. Validation of a multi-phase plant-wide model for the description of the aeration process in a WWTP.

    Science.gov (United States)

    Lizarralde, I; Fernández-Arévalo, T; Beltrán, S; Ayesa, E; Grau, P

    2018-02-01

    This paper introduces a new mathematical model built under the PC-PWM methodology to describe the aeration process in a full-scale WWTP. This methodology enables a systematic and rigorous incorporation of chemical and physico-chemical transformations into biochemical process models, particularly for the description of liquid-gas transfer to describe the aeration process. The mathematical model constructed is able to reproduce biological COD and nitrogen removal, liquid-gas transfer and chemical reactions. The capability of the model to describe the liquid-gas mass transfer has been tested by comparing simulated and experimental results in a full-scale WWTP. Finally, an exploration by simulation has been undertaken to show the potential of the mathematical model. Copyright © 2017 Elsevier Ltd. All rights reserved.

  4. EPIC Forest LAI Dataset: LAI estimates generated from the USDA Environmental Policy Impact Climate (EPIC) model (a widely used, field-scale, biogeochemical model) on four forest complexes spanning three physiographic provinces in VA and NC.

    Data.gov (United States)

    U.S. Environmental Protection Agency — This data depicts calculated and validated LAI estimates generated from the USDA Environmental Policy Impact Climate (EPIC) model (a widely used, field-scale,...

  5. Towards a plant-wide Benchmark Simulation Model with simultaneous nitrogen and phosphorus removal wastewater treatment processes

    DEFF Research Database (Denmark)

    Flores-Alsina, Xavier; Ikumi, David; Batstone, Damien

    ) modifications of the original BSM2 physical plant layout; 4) new/upgraded generic mathematical models; 5) model integration; 6) new control handles/sensors; and 7) new extended evaluation criteria. The paper covers and analyzes all these aspects in detail, identifying the main bottlenecks that need......It is more than 10 years since the publication of the Benchmark Simulation Model No 1 (BSM1) manual (Copp, 2002). The main objective of BSM1 was creating a platform for benchmarking carbon and nitrogen removal strategies in activated sludge systems. The initial platform evolved into BSM1_LT and BSM...

  6. Effects of Film Modeling on the Reduction of Anxiety-Related Behaviors in Individuals Varying in Level of Previous Experience in the Stress Situation.

    Science.gov (United States)

    Melamed, Barbara G.; And Others

    1978-01-01

    Evaluated influence of film preparation on children undergoing dental sessions with respect to peer modeling v demonstration of procedures and amount of information. Children exposed to peer-model videotaped presentations immediately preceding their restorative treatment exhibited fewer disruptive behaviors and less apprehension than those…

  7. Risk-assessment of post-wildfire hydrological response in semi-arid basins: The effects of varying rainfall representations in the KINEROS2/AGWA model

    Science.gov (United States)

    Representation of precipitation is one of the most difficult aspects of modeling post-fire runoff and erosion and also one of the most sensitive input parameters to rainfall-runoff models. The impact of post-fire convective rainstorms, especially in semi-arid watersheds, depends on the overlap betwe...

  8. Water planning in a mixed land use Mediterranean area: point-source abstraction and pollution scenarios by a numerical model of varying stream-aquifer regime.

    Science.gov (United States)

    Du, Mingxuan; Fouché, Olivier; Zavattero, Elodie; Ma, Qiang; Delestre, Olivier; Gourbesville, Philippe

    2018-02-22

    Integrated hydrodynamic modelling is an efficient approach for making semi-quantitative scenarios reliable enough for groundwater management, provided that the numerical simulations are from a validated model. The model set-up, however, involves many inputs due to the complexity of both the hydrological system and the land use. The case study of a Mediterranean alluvial unconfined aquifer in the lower Var valley (Southern France) is useful to test a method to estimate lacking data on water abstraction by small farms in urban context. With this estimation of the undocumented pumping volumes, and after calibration of the exchange parameters of the stream-aquifer system with the help of a river model, the groundwater flow model shows a high goodness of fit with the measured potentiometric levels. The consistency between simulated results and real behaviour of the system, with regard to the observed effects of lowering weirs and previously published hydrochemistry data, confirms reliability of the groundwater flow model. On the other hand, accuracy of the transport model output may be influenced by many parameters, many of which are not derived from field measurements. In this case study, for which river-aquifer feeding is the main control, the partition coefficient between direct recharge and runoff does not show a significant effect on the transport model output, and therefore, uncertainty of the hydrological terms such as evapotranspiration and runoff is not a first-rank issue to the pollution propagation. The simulation of pollution scenarios with the model returns expected pessimistic outputs, with regard to hazard management. The model is now ready to be used in a decision support system by the local water supply managers.

  9. Genome-wide identification of Pseudomonas aeruginosa virulence-related genes using a Caenorhabditis elegans infection model.

    Directory of Open Access Journals (Sweden)

    Rhonda L Feinbaum

    Full Text Available Pseudomonas aeruginosa strain PA14 is an opportunistic human pathogen capable of infecting a wide range of organisms including the nematode Caenorhabditis elegans. We used a non-redundant transposon mutant library consisting of 5,850 clones corresponding to 75% of the total and approximately 80% of the non-essential PA14 ORFs to carry out a genome-wide screen for attenuation of PA14 virulence in C. elegans. We defined a functionally diverse 180 mutant set (representing 170 unique genes necessary for normal levels of virulence that included both known and novel virulence factors. Seven previously uncharacterized virulence genes (ABC transporters PchH and PchI, aminopeptidase PepP, ATPase/molecular chaperone ClpA, cold shock domain protein PA0456, putative enoyl-CoA hydratase/isomerase PA0745, and putative transcriptional regulator PA14_27700 were characterized with respect to pigment production and motility and all but one of these mutants exhibited pleiotropic defects in addition to their avirulent phenotype. We examined the collection of genes required for normal levels of PA14 virulence with respect to occurrence in P. aeruginosa strain-specific genomic regions, location on putative and known genomic islands, and phylogenetic distribution across prokaryotes. Genes predominantly contributing to virulence in C. elegans showed neither a bias for strain-specific regions of the P. aeruginosa genome nor for putatively horizontally transferred genomic islands. Instead, within the collection of virulence-related PA14 genes, there was an overrepresentation of genes with a broad phylogenetic distribution that also occur with high frequency in many prokaryotic clades, suggesting that in aggregate the genes required for PA14 virulence in C. elegans are biased towards evolutionarily conserved genes.

  10. Genome-wide identification of Pseudomonas aeruginosa virulence-related genes using a Caenorhabditis elegans infection model.

    Science.gov (United States)

    Feinbaum, Rhonda L; Urbach, Jonathan M; Liberati, Nicole T; Djonovic, Slavica; Adonizio, Allison; Carvunis, Anne-Ruxandra; Ausubel, Frederick M

    2012-01-01

    Pseudomonas aeruginosa strain PA14 is an opportunistic human pathogen capable of infecting a wide range of organisms including the nematode Caenorhabditis elegans. We used a non-redundant transposon mutant library consisting of 5,850 clones corresponding to 75% of the total and approximately 80% of the non-essential PA14 ORFs to carry out a genome-wide screen for attenuation of PA14 virulence in C. elegans. We defined a functionally diverse 180 mutant set (representing 170 unique genes) necessary for normal levels of virulence that included both known and novel virulence factors. Seven previously uncharacterized virulence genes (ABC transporters PchH and PchI, aminopeptidase PepP, ATPase/molecular chaperone ClpA, cold shock domain protein PA0456, putative enoyl-CoA hydratase/isomerase PA0745, and putative transcriptional regulator PA14_27700) were characterized with respect to pigment production and motility and all but one of these mutants exhibited pleiotropic defects in addition to their avirulent phenotype. We examined the collection of genes required for normal levels of PA14 virulence with respect to occurrence in P. aeruginosa strain-specific genomic regions, location on putative and known genomic islands, and phylogenetic distribution across prokaryotes. Genes predominantly contributing to virulence in C. elegans showed neither a bias for strain-specific regions of the P. aeruginosa genome nor for putatively horizontally transferred genomic islands. Instead, within the collection of virulence-related PA14 genes, there was an overrepresentation of genes with a broad phylogenetic distribution that also occur with high frequency in many prokaryotic clades, suggesting that in aggregate the genes required for PA14 virulence in C. elegans are biased towards evolutionarily conserved genes.

  11. 78 FR 25293 - Notice of Intent To Change HUD-Wide the Operating Model of the Office of Multifamily Housing

    Science.gov (United States)

    2013-04-30

    ... organizational structure antiquated systems and processes, and role specification which allows for little... implementation. These changes include the following: (1) Streamline the organizational structure; (2) Introduce... operating model. Specifically, the Office of Multifamily Housing will streamline its organizational...

  12. Advanced Wall Boiling Model with Wide Range Applicability for the Subcooled Boiling Flow and its Application into the CFD Code

    International Nuclear Information System (INIS)

    Yun, B. J.; Song, C. H.; Splawski, A.; Lo, S.

    2010-01-01

    Subcooled boiling is one of the crucial phenomena for the design, operation and safety analysis of a nuclear power plant. It occurs due to the thermally nonequilibrium state in the two-phase heat transfer system. Many complicated phenomena such as a bubble generation, a bubble departure, a bubble growth, and a bubble condensation are created by this thermally nonequilibrium condition in the subcooled boiling flow. However, it has been revealed that most of the existing best estimate safety analysis codes have a weakness in the prediction of the subcooled boiling phenomena in which multi-dimensional flow behavior is dominant. In recent years, many investigators are trying to apply CFD (Computational Fluid Dynamics) codes for an accurate prediction of the subcooled boiling flow. In the CFD codes, evaporation heat flux from heated wall is one of the key parameters to be modeled for an accurate prediction of the subcooled boiling flow. The evaporate heat flux for the CFD codes is expressed typically as follows, q' e = πD 3 d /6 ρ g h fg fN' where, D d , f ,N' are bubble departure size, bubble departure frequency and active nucleation site density, respectively. In the most of the commercial CFD codes, Tolubinsky bubble departure size model, Kurul and Podowski active nucleation site density model and Ceumem-Lindenstjerna bubble departure frequency model are adopted as a basic wall boiling model. However, these models do not consider their dependency on the flow, pressure and fluid type. In this paper, an advanced wall boiling model was proposed in order to improve subcooled boiling model for the CFD codes

  13. Models of neocortical layer 5b pyramidal cells capturing a wide range of dendritic and perisomatic active properties.

    Directory of Open Access Journals (Sweden)

    Etay Hay

    2011-07-01

    Full Text Available The thick-tufted layer 5b pyramidal cell extends its dendritic tree to all six layers of the mammalian neocortex and serves as a major building block for the cortical column. L5b pyramidal cells have been the subject of extensive experimental and modeling studies, yet conductance-based models of these cells that faithfully reproduce both their perisomatic Na(+-spiking behavior as well as key dendritic active properties, including Ca(2+ spikes and back-propagating action potentials, are still lacking. Based on a large body of experimental recordings from both the soma and dendrites of L5b pyramidal cells in adult rats, we characterized key features of the somatic and dendritic firing and quantified their statistics. We used these features to constrain the density of a set of ion channels over the soma and dendritic surface via multi-objective optimization with an evolutionary algorithm, thus generating a set of detailed conductance-based models that faithfully replicate the back-propagating action potential activated Ca(2+ spike firing and the perisomatic firing response to current steps, as well as the experimental variability of the properties. Furthermore, we show a useful way to analyze model parameters with our sets of models, which enabled us to identify some of the mechanisms responsible for the dynamic properties of L5b pyramidal cells as well as mechanisms that are sensitive to morphological changes. This automated framework can be used to develop a database of faithful models for other neuron types. The models we present provide several experimentally-testable predictions and can serve as a powerful tool for theoretical investigations of the contribution of single-cell dynamics to network activity and its computational capabilities.

  14. Accuracy of the blob model for single flexible polymers inside nanoslits that are a few monomer sizes wide

    Science.gov (United States)

    Nikoofard, Narges; Hoseinpoor, S. Mohammad; Zahedifar, Mostafa

    2014-12-01

    The de Gennes' blob model is extensively used in different problems of polymer physics. This model is theoretically applicable when the number of monomers inside each blob is large enough. For confined flexible polymers, this requires the confining geometry to be much larger than the monomer size. In this paper, the opposite limit of polymer in nanoslits with one to several monomers width is studied, using molecular dynamics simulations. Extension of the polymer inside nanoslits, confinement force on the plates, and the effective spring constant of the confined polymer are investigated. Despite the theoretical limitations of the blob model, the simulation results are explained with the blob model very well. The agreement is observed for the static properties and the dynamic spring constant of the polymer. A theoretical description of the conditions under which the dynamic spring constant of the polymer is independent of the small number of monomers inside blobs is given. Our results on the limit of applicability of the blob model can be useful in the design of nanotechnology devices.

  15. Olfactory learning without the mushroom bodies: Spiking neural network models of the honeybee lateral antennal lobe tract reveal its capacities in odour memory tasks of varied complexities.

    Science.gov (United States)

    MaBouDi, HaDi; Shimazaki, Hideaki; Giurfa, Martin; Chittka, Lars

    2017-06-01

    The honeybee olfactory system is a well-established model for understanding functional mechanisms of learning and memory. Olfactory stimuli are first processed in the antennal lobe, and then transferred to the mushroom body and lateral horn through dual pathways termed medial and lateral antennal lobe tracts (m-ALT and l-ALT). Recent studies reported that honeybees can perform elemental learning by associating an odour with a reward signal even after lesions in m-ALT or blocking the mushroom bodies. To test the hypothesis that the lateral pathway (l-ALT) is sufficient for elemental learning, we modelled local computation within glomeruli in antennal lobes with axons of projection neurons connecting to a decision neuron (LHN) in the lateral horn. We show that inhibitory spike-timing dependent plasticity (modelling non-associative plasticity by exposure to different stimuli) in the synapses from local neurons to projection neurons decorrelates the projection neurons' outputs. The strength of the decorrelations is regulated by global inhibitory feedback within antennal lobes to the projection neurons. By additionally modelling octopaminergic modification of synaptic plasticity among local neurons in the antennal lobes and projection neurons to LHN connections, the model can discriminate and generalize olfactory stimuli. Although positive patterning can be accounted for by the l-ALT model, negative patterning requires further processing and mushroom body circuits. Thus, our model explains several-but not all-types of associative olfactory learning and generalization by a few neural layers of odour processing in the l-ALT. As an outcome of the combination between non-associative and associative learning, the modelling approach allows us to link changes in structural organization of honeybees' antennal lobes with their behavioural performances over the course of their life.

  16. Concordant but Varied Phenotypes among Duchenne Muscular Dystrophy Patient-Specific Myoblasts Derived using a Human iPSC-Based Model

    Directory of Open Access Journals (Sweden)

    In Young Choi

    2016-06-01

    Full Text Available Duchenne muscular dystrophy (DMD remains an intractable genetic disease. Althogh there are several animal models of DMD, there is no human cell model that carries patient-specific DYSTROPHIN mutations. Here, we present a human DMD model using human induced pluripotent stem cells (hiPSCs. Our model reveals concordant disease-related phenotypes with patient-dependent variation, which are partially reversed by genetic and pharmacological approaches. Our “chemical-compound-based” strategy successfully directs hiPSCs into expandable myoblasts, which exhibit a myogenic transcriptional program, forming striated contractile myofibers and participating in muscle regeneration in vivo. DMD-hiPSC-derived myoblasts show disease-related phenotypes with patient-to-patient variability, including aberrant expression of inflammation or immune-response genes and collagens, increased BMP/TGFβ signaling, and reduced fusion competence. Furthermore, by genetic correction and pharmacological “dual-SMAD” inhibition, the DMD-hiPSC-derived myoblasts and genetically corrected isogenic myoblasts form “rescued” multi-nucleated myotubes. In conclusion, our findings demonstrate the feasibility of establishing a human “DMD-in-a-dish” model using hiPSC-based disease modeling.

  17. A plant-wide aqueous phase chemistry module describing pH variations and ion speciation/pairing in wastewater treatment process models

    DEFF Research Database (Denmark)

    Flores Alsina, Xavier; Kazadi Mbamba, Christian; Solon, Kimberly

    2015-01-01

    standard models. The module accounts for extensive consideration of non-ideality, including ion activities instead of molar concentrations and complex ion pairing. The general equilibria are formulated as a set of Differential Algebraic Equations (DAEs) instead of Ordinary Differential Equations (ODEs......There is a growing interest within the Wastewater Treatment Plant (WWTP) modelling community to correctly describe physico-chemical processes after many years of mainly focusing on biokinetics. Indeed, future modelling needs, such as a plant-wide phosphorus (P) description, require a major...... at different cationic/anionic loads. In this way, the general applicability/flexibility of the proposed approach is demonstrated, by implementing the aqueous phase chemistry module in some of the most frequently used WWTP process simulation models. Finally, it is shown how traditional wastewater modelling...

  18. Slice-based supine-to-standing posture deformation for chinese anatomical models and the dosimetric results with wide band frequency electromagnetic field exposure: Simulation

    International Nuclear Information System (INIS)

    Wu, T.; Tan, L.; Shao, Q.; Li, Y.; Yang, L.; Zhao, C.; Xie, Y.; Zhang, S.

    2013-01-01

    Standing Chinese adult anatomical models are obtained from supine-postured cadaver slices. This paper presents the dosimetric differences between the supine and the standing postures over wide band frequencies and various incident configurations. Both the body level and the tissue/organ level differences are reported for plane wave and the 3T magnetic resonance imaging radiofrequency electromagnetic field exposure. The influence of posture on the whole body specific absorption rate and tissue specified specific absorption rate values is discussed. . (authors)

  19. A wide-angle gradient index optical model of the crystalline lens and eye of the octopus.

    Science.gov (United States)

    Jagger, W S; Sands, P J

    1999-08-01

    Cephalopods and fish have had no common ancestor since the Cambrian, and their eyes are a classic example of convergent evolution. The octopus has no cornea, and immerson renders the trout cornea optically ineffective. As a result, the nearly spherical lens is responsible for all refraction in these eyes. In spite of the fact that the octopus lens consists of two joined parts, while the trout lens consists of one part, we show here that their optical properties are very similar. An index gradient bends rays within these lenses, adding power and correcting spherical aberration. High spherical symmetry in both lenses strongly reduces other monochromatic aberrations and yields a wide field of vision, advantageous in attack and evasion. The octopus Mattheissen's ratio, 2.83, an inverse measure of light-gathering power, lies above the trout value of 2.38 but within the range of values reported for fish. Strong uncorrected longitudinal chromatic aberration is nearly identical in both animals as a result of similar lens protein optical properties, and will limit resolution. We discuss how animal lifestyle requirements and lens material properties influence the design of these eyes.

  20. Modeling The Atmosphere In The Era Of Big Data From Extremely Wide Field-Of-View Telescopes

    Science.gov (United States)

    Gonzalez Quiles, Junellie; Nordin, Jakob

    2018-01-01

    Surveys like the Sloan Digital Sky Survey (SDSS), Pan-STARRS and the Palomar Transient Factory Survey (PTF) receive large amounts of data, which need to be processed and calibrated in order to correct for various factors. One of the limiting factors in obtaining high quality data is the atmosphere, and it is therefore essential to find the appropriate calibration for the atmospheric extinction. It is to be expected that a physical atmospheric model, compared to a photometric calibration used currently by PTF, is more effective in calibrating for the atmospheric extinction due to its ability to account for rapid atmospheric fluctuation and objects of different colors. We focused on creating tools to model the atmospheric extinction for the upcoming Zwicky Transient Factory Survey (ZTF). In order to model the atmosphere, we created a program that combines input data and catalogue values, and efficiently handles them. Then, using PTF data and the SDSS catalogue, we created several models to fit the data, and tested the quality of the fits by chi-square minimization. This will allow us to optimize atmospheric extinction for the upcoming ZTF in the near future.

  1. Volumetric, viscometric, spectral studies and viscosity modelling of binary mixtures of esters and alcohols (diethyl succinate, or ethyl octanoate + isobutanol, or isopentanol) at varying temperatures

    International Nuclear Information System (INIS)

    Majstorović, Divna M.; Živković, Emila M.; Matija, Lidija R.; Kijevčanin, Mirjana Lj.

    2017-01-01

    Highlights: • Densitis and viscosities of four ester + alcohol binary mixtures were measured. • Excess and deviation functions were calculated. • Fourier transform infrared (FT-IR) spectroscopy analysis was conducted. • Molecular interactions present in the mixture were analyzed. • Viscosity modelling was performed. - Abstract: Density, viscosity and refractive index of four binary mixtures consisting of diethyl succinate or ethyl octanoate + 2-methyl-1-propanol or 3-methyl-1-butanol have been measured at atmospheric pressure and over the temperature range from 288.15 K to 323.15 K. Excess and deviation functions have been calculated from these data and fitted to the Redlich-Kister equation. The values of excess molar volume and deviation functions, with FT-IR study, were further used in the analysis of molecular interactions present in the mixture as well as the temperature influence on them. Molar excess Gibbs free energies of activation of viscous flow were additionally calculated from measured density and viscosity data for better understanding of present molecular interactions. Viscosity modelling was done with two approaches, predictive by group contribution models (UNIFAC-VISCO and ASOG-VISCO), and correlative by one to three-parameter models (Teja-Rice, Grunberg–Nissan, McAlister, Eyring-UNIQUAC and Eyring-NRTL). The obtained results were compared with experimental data and conclusions about applied approaches and models were made.

  2. MI-GWAS: a SAS platform for the analysis of inherited and maternal genetic effects in genome-wide association studies using log-linear models

    Directory of Open Access Journals (Sweden)

    Mitchell Laura E

    2011-04-01

    Full Text Available Abstract Background Several platforms for the analysis of genome-wide association data are available. However, these platforms focus on the evaluation of the genotype inherited by affected (i.e. case individuals, whereas for some conditions (e.g. birth defects the genotype of the mothers of affected individuals may also contribute to risk. For such conditions, it is critical to evaluate associations with both the maternal and the inherited (i.e. case genotype. When genotype data are available for case-parent triads, a likelihood-based approach using log-linear modeling can be used to assess both the maternal and inherited genotypes. However, available software packages for log-linear analyses are not well suited to the analysis of typical genome-wide association data (e.g. including missing data. Results An integrated platform, Maternal and Inherited Analyses for Genome-wide Association Studies (MI-GWAS for log-linear analyses of maternal and inherited genetic effects in large, genome-wide datasets, is described. MI-GWAS uses SAS and LEM software in combination to appropriately format data, perform the log-linear analyses and summarize the results. This platform was evaluated using existing genome-wide data and was shown to perform accurately and relatively efficiently. Conclusions The MI-GWAS platform provides a valuable tool for the analysis of association of a phenotype or condition with maternal and inherited genotypes using genome-wide data from case-parent triads. The source code for this platform is freely available at http://www.sph.uth.tmc.edu/sbrr/mi-gwas.htm.

  3. Estimate the time varying brain receptor occupancy in PET imaging experiments using non-linear fixed and mixed effect modeling approach

    International Nuclear Information System (INIS)

    Zamuner, Stefano; Gomeni, Roberto; Bye, Alan

    2002-01-01

    Positron-Emission Tomography (PET) is an imaging technology currently used in drug development as a non-invasive measure of drug distribution and interaction with biochemical target system. The level of receptor occupancy achieved by a compound can be estimated by comparing time-activity measurements in an experiment done using tracer alone with the activity measured when the tracer is given following administration of unlabelled compound. The effective use of this surrogate marker as an enabling tool for drug development requires the definition of a model linking the brain receptor occupancy with the fluctuation of plasma concentrations. However, the predictive performance of such a model is strongly related to the precision on the estimate of receptor occupancy evaluated in PET scans collected at different times following drug treatment. Several methods have been proposed for the analysis and the quantification of the ligand-receptor interactions investigated from PET data. The aim of the present study is to evaluate alternative parameter estimation strategies based on the use of non-linear mixed effect models allowing to account for intra and inter-subject variability on the time-activity and for covariates potentially explaining this variability. A comparison of the different modeling approaches is presented using real data. The results of this comparison indicates that the mixed effect approach with a primary model partitioning the variance in term of Inter-Individual Variability (IIV) and Inter-Occasion Variability (IOV) and a second stage model relating the changes on binding potential to the dose of unlabelled drug is definitely the preferred approach

  4. DNA Repair Domain Modeling Can Predict Cell Death and Mutation Frequency for Wide Range Spectrum of Radiation

    Science.gov (United States)

    Viger, Louise; Ponomarev, Artem L.; Plante, Ianik; Evain, Trevor; Penninckx, Sebastien; Blattnig, Steve R.; Costes, Sylvain V.

    2017-01-01

    Exploration missions to Mars and other destinations raise many questions about the health of astronauts. The continuous exposure of astronauts to galactic cosmic rays is one of the main concerns for long-term missions. Cosmic ionizing radiations are composed of different ions of various charges and energies notably, highly charged energy (HZE) particles. The HZE particles have been shown to be more carcinogenic than low-LET radiation, suggesting the severity of chromosomal aberrations induced by HZE particles is one possible explanation. However, most mathematical models predicting cell death and mutation frequency are based on directly fitting various HZE dose response and are in essence empirical approaches. In this work, we assume a simple biological mechanism to model DNA repair and use it to simultaneously explain the low- and high-LET response using the exact same fitting parameters. Our work shows that the geometrical position of DNA repair along tracks of heavy ions are sufficient to explain why high-LET particles can induce more death and mutations. Our model is based on assuming DNA double strand breaks (DSBs) are repaired within repair domain, and that any DSBs located within the same repair domain cluster into one repair unit, facilitating chromosomal rearrangements and increasing the probability of cell death. We introduced this model in 2014 using simplified microdosimetry profiles to predict cell death. In this work, we collaborated with NASA Johnson Space Center to generate more accurate microdosimetry profiles derived by Monte Carlo techniques, taking into account track structure of HZE particles and simulating DSBs in realistic cell geometry. We simulated 224 data points (D, A, Z, E) with the BDSTRACKS model, leading to a large coverage of LET from 10 to 2,400 keV/µm. This model was used to generate theoretical RBE for various particles and energies for both cell death and mutation frequencies. The RBE LET dependence is in agreement with

  5. Social contagions on time-varying community networks

    Science.gov (United States)

    Liu, Mian-Xin; Wang, Wei; Liu, Ying; Tang, Ming; Cai, Shi-Min; Zhang, Hai-Feng

    2017-05-01

    Time-varying community structures exist widely in real-world networks. However, previous studies on the dynamics of spreading seldom took this characteristic into account, especially those on social contagions. To study the effects of time-varying community structures on social contagions, we propose a non-Markovian social contagion model on time-varying community networks based on the activity-driven network model. A mean-field theory is developed to analyze the proposed model. Through theoretical analyses and numerical simulations, two hierarchical features of the behavior adoption processes are found. That is, when community strength is relatively large, the behavior can easily spread in one of the communities, while in the other community the spreading only occurs at higher behavioral information transmission rates. Meanwhile, in spatial-temporal evolution processes, hierarchical orders are observed for the behavior adoption. Moreover, under different information transmission rates, three distinctive patterns are demonstrated in the change of the whole network's final adoption proportion along with the growing community strength. Within a suitable range of transmission rate, an optimal community strength can be found that can maximize the final adoption proportion. Finally, compared with the average activity potential, the promoting or inhibiting of social contagions is much more influenced by the number of edges generated by active nodes.

  6. Coordinating rule-based and system-wide model predictive control strategies to reduce storage expansion of combined urban drainage systems: The case study of Lundtofte, Denmark

    DEFF Research Database (Denmark)

    Meneses, Elbys Jose; Gaussens, Marion; Jakobsen, Carsten

    2018-01-01

    with environmental requirements. A coordinating, rule-based RTC strategy and a global, system-wide risk-based dynamic optimization strategy (model predictive control), were compared using a detailed hydrodynamic model. RTC allowed a reduction of the planned storage volume by 21% while improving the system...... a five-year period. This study illustrates that including RTC during the planning stages reduces the infrastructural costs while offering better environmental protection, and that dynamic risk-based optimisation allows prioritising environmental impact reduction for particularly sensitive locations....

  7. Quantitative methanol-burning lung model for validating gas-exchange measurements over wide ranges of FIO2.

    Science.gov (United States)

    Miodownik, S; Melendez, J; Carlon, V A; Burda, B

    1998-06-01

    The methanol-burning lung model has been used as a technique for generating a predictable ratio of carbon dioxide production (VCO2) to oxygen consumption (VO2) or respiratory quotient (RQ). Although an accurate RQ can be generated, quantitatively predictable and adjustable VO2 and VCO2 cannot be generated. We describe a new burner device in which the combustion rate of methanol is always equal to the infusion rate of fuel over an extended range of O2 concentrations. This permits the assembly of a methanol-burning lung model that is usable with O2 concentrations up to 100% and provides continuously adjustable and quantitative VO2 (69-1,525 ml/min) and VCO2 (46-1,016 ml/min) at a RQ of 0.667.

  8. European-wide simulations of present cropland phenology, productivity and carbon fluxes using an improved terrestrial biosphere model

    Science.gov (United States)

    Smith, P. C.; Ciais, P.; de Noblet, N.; Peylin, P.; Viovy, N.; Bondeau, A.

    2009-04-01

    Aiming at producing improved estimates of carbon source/sink spatial and interannual patterns across Europe (35% croplands), this work combines the terrestrial biosphere model ORCHIDEE (for vegetation productivity, water balance, soil carbon dynamics) and the generic crop model STICS (for phenology, irrigation, nitrogen balance, harvest). The ORCHIDEE-STICS model, relying on three plant functional types for the representation of temperate agriculture, is evaluated over the last few decades at various spatial and temporal resolutions. The simulated Leaf Area Index seasonal cycle is largely improved relative to the original ORCHIDEE simulating grasslands, and compares favourably with remote-sensing observations (the Figure of Merit in Time doubles over Europe). Crop yield is derived from annual Net Primary Productivity and compared with wheat and grain maize harvest data for five European countries. Discrepancies between 30-year mean simulated and reported yields remain large in Mediterranean countries. Interannual variability amplitude expressed relative to the mean is reduced towards the observed variability (~10%) when using ORCHIDEE-STICS. The simulated 2003 anomalous carbon source from European ecosystems to the atmosphere due to the 2003 summer heat wave is in good agreement with atmospheric inversions (~0.2 GtC, from May to October). The anomaly is twice as large in the ORCHIDEE alone simulation, owing to the unrealistically high exposure of herbaceous plants to the extreme summer conditions. Overall, this study highlights the importance of accounting for the specific phonologies of crops sown both in winter and in spring and for irrigation applied to summer crops in regional/global models of the terrestrial carbon cycle. Limitations suggest accounting for temporal and spatial variability in agricultural practices for further simulation improvement.

  9. Cycle Engine Modelling Of Spark Ignition Engine Processes during Wide-Open Throttle (WOT) Engine Operation Running By Gasoline Fuel

    International Nuclear Information System (INIS)

    Rahim, M F Abdul; Rahman, M M; Bakar, R A

    2012-01-01

    One-dimensional engine model is developed to simulate spark ignition engine processes in a 4-stroke, 4 cylinders gasoline engine. Physically, the baseline engine is inline cylinder engine with 3-valves per cylinder. Currently, the engine's mixture is formed by external mixture formation using piston-type carburettor. The model of the engine is based on one-dimensional equation of the gas exchange process, isentropic compression and expansion, progressive engine combustion process, and accounting for the heat transfer and frictional losses as well as the effect of valves overlapping. The model is tested for 2000, 3000 and 4000 rpm of engine speed and validated using experimental engine data. Results showed that the engine is able to simulate engine's combustion process and produce reasonable prediction. However, by comparing with experimental data, major discrepancy is noticeable especially on the 2000 and 4000 rpm prediction. At low and high engine speed, simulated cylinder pressures tend to under predict the measured data. Whereas the cylinder temperatures always tend to over predict the measured data at all engine speed. The most accurate prediction is obtained at medium engine speed of 3000 rpm. Appropriate wall heat transfer setup is vital for more precise calculation of cylinder pressure and temperature. More heat loss to the wall can lower cylinder temperature. On the hand, more heat converted to the useful work mean an increase in cylinder pressure. Thus, instead of wall heat transfer setup, the Wiebe combustion parameters are needed to be carefully evaluated for better results.

  10. Slice-based supine to standing postured deformation for chinese anatomical models and the dosimetric results by wide band frequency electromagnetic field exposure: Morphing

    International Nuclear Information System (INIS)

    Wu, T.; Tan, L.; Shao, Q.; Li, Y.; Yang, L.; Zhao, C.; Xie, Y.; Zhang, S.

    2013-01-01

    Digital human models are frequently obtained from supine-postured medical images or cadaver slices, but many applications require standing models. This paper presents the work of reconstructing standing Chinese adult anatomical models from supine postured slices. Apart from the previous studies, the deformation works on 2-D segmented slices. The surface profile of the standing posture is adjusted by population measurement data. A non-uniform texture amplification approach is applied on the 2-D slices to recover the skin contour and to redistribute the internal tissues. Internal organ shift due to postures is taken into account. The feet are modified by matrix rotation. Then, the supine and standing models are utilised for the evaluation of electromagnetic field exposure over wide band frequency and different incident directions. . (authors)

  11. Genome-wide gene expression profiling of stress response in a spinal cord clip compression injury model.

    Science.gov (United States)

    Chamankhah, Mahmood; Eftekharpour, Eftekhar; Karimi-Abdolrezaee, Soheila; Boutros, Paul C; San-Marina, Serban; Fehlings, Michael G

    2013-08-28

    The aneurysm clip impact-compression model of spinal cord injury (SCI) is a standard injury model in animals that closely mimics the primary mechanism of most human injuries: acute impact and persisting compression. Its histo-pathological and behavioural outcomes are extensively similar to human SCI. To understand the distinct molecular events underlying this injury model we analyzed global mRNA abundance changes during the acute, subacute and chronic stages of a moderate to severe injury to the rat spinal cord. Time-series expression analyses resulted in clustering of the majority of deregulated transcripts into eight statistically significant expression profiles. Systematic application of Gene Ontology (GO) enrichment pathway analysis allowed inference of biological processes participating in SCI pathology. Temporal analysis identified events specific to and common between acute, subacute and chronic time-points. Processes common to all phases of injury include blood coagulation, cellular extravasation, leukocyte cell-cell adhesion, the integrin-mediated signaling pathway, cytokine production and secretion, neutrophil chemotaxis, phagocytosis, response to hypoxia and reactive oxygen species, angiogenesis, apoptosis, inflammatory processes and ossification. Importantly, various elements of adaptive and induced innate immune responses span, not only the acute and subacute phases, but also persist throughout the chronic phase of SCI. Induced innate responses, such as Toll-like receptor signaling, are more active during the acute phase but persist throughout the chronic phase. However, adaptive immune response processes such as B and T cell activation, proliferation, and migration, T cell differentiation, B and T cell receptor-mediated signaling, and B cell- and immunoglobulin-mediated immune response become more significant during the chronic phase. This analysis showed that, surprisingly, the diverse series of molecular events that occur in the acute and subacute

  12. Design of a Kaplan turbine for a wide range of operating head -Curved draft tube design and model test verification-

    Science.gov (United States)

    KO, Pohan; MATSUMOTO, Kiyoshi; OHTAKE, Norio; DING, Hua

    2016-11-01

    As for turbomachine off-design performance improvement is challenging but critical for maximising the performing area. In this paper, a curved draft tube for a medium head Kaplan type hydro turbine is introduced and discussed for its significant effect on expanding operating head range. Without adding any extra structure and working fluid for swirl destruction and damping, a carefully designed outline shape of draft tube with the selected placement of center-piers successfully supresses the growth of turbulence eddy and the transport of the swirl to the outlet. Also, more kinetic energy is recovered and the head lost is improved. Finally, the model test results are also presented. The obvious performance improvement was found in the lower net head area, where the maximum efficiency improvement was measured up to 20% without compromising the best efficiency point. Additionally, this design results in a new draft tube more compact in size and so leads to better construction and manufacturing cost performance for prototype. The draft tube geometry parameter designing process was concerning the best efficiency point together with the off-design points covering various water net heads and discharges. The hydraulic performance and flow behavior was numerically previewed and visualized by solving Reynolds-Averaged Navier-Stokes equations with Shear Stress Transport turbulence model. The simulation was under the assumption of steady-state incompressible turbulence flow inside the flow passage, and the inlet boundary condition was the carefully simulated flow pattern from the runner outlet. For confirmation, the corresponding turbine efficiency performance of the entire operating area was verified by model test.

  13. Genome-wide gene expression profiling of stress response in a spinal cord clip compression injury model

    Science.gov (United States)

    2013-01-01

    Background The aneurysm clip impact-compression model of spinal cord injury (SCI) is a standard injury model in animals that closely mimics the primary mechanism of most human injuries: acute impact and persisting compression. Its histo-pathological and behavioural outcomes are extensively similar to human SCI. To understand the distinct molecular events underlying this injury model we analyzed global mRNA abundance changes during the acute, subacute and chronic stages of a moderate to severe injury to the rat spinal cord. Results Time-series expression analyses resulted in clustering of the majority of deregulated transcripts into eight statistically significant expression profiles. Systematic application of Gene Ontology (GO) enrichment pathway analysis allowed inference of biological processes participating in SCI pathology. Temporal analysis identified events specific to and common between acute, subacute and chronic time-points. Processes common to all phases of injury include blood coagulation, cellular extravasation, leukocyte cell-cell adhesion, the integrin-mediated signaling pathway, cytokine production and secretion, neutrophil chemotaxis, phagocytosis, response to hypoxia and reactive oxygen species, angiogenesis, apoptosis, inflammatory processes and ossification. Importantly, various elements of adaptive and induced innate immune responses span, not only the acute and subacute phases, but also persist throughout the chronic phase of SCI. Induced innate responses, such as Toll-like receptor signaling, are more active during the acute phase but persist throughout the chronic phase. However, adaptive immune response processes such as B and T cell activation, proliferation, and migration, T cell differentiation, B and T cell receptor-mediated signaling, and B cell- and immunoglobulin-mediated immune response become more significant during the chronic phase. Conclusions This analysis showed that, surprisingly, the diverse series of molecular events that

  14. The combined predictive capacity of rat models of algogen-induced and neuropathic hypersensitivity to clinically used analgesics varies with nociceptive endpoint and consideration of locomotor function

    DEFF Research Database (Denmark)

    Munro, Gordon; Storm, Ann; Hansen, Merete K.

    2012-01-01

    deficits developed quickly and persisted for at least 3 weeks post-injury. In contrast, evoked cold hypersensitivity, or movement-associated behavioural deficits (rotarod, beam-walking) were less manifested or dissipated rapidly post-injury. Mechanical hypersensitivity was dose-dependently reversed...... sensitization and nociceptor hyperexcitability mechanisms. Only gabapentin consistently attenuated nociceptive behaviours at a dose that did not impair exploratory locomotor behaviour in naïve rats. Accordingly, this comparative analysis indicates that the pharmacological sensitivity of evoked and non......-evoked pain indices does not necessarily correlate within models, perhaps reflecting differing underlying mechanisms. Conversely, the pharmacological specificity of non-evoked pain indices to selected drugs was conserved across models indicative of similar underlying mechanisms enduring in the face...

  15. Local Genealogies in a Linear Mixed Model for Genome-wide Association Mapping in Complex Pedigreed Populations

    DEFF Research Database (Denmark)

    Sahana, Goutam; Mailund, Thomas; Lund, Mogens Sandø

    2011-01-01

    be extended to incorporate other effects in a straightforward and rigorous fashion. Here, we present a complementary approach, called ‘GENMIX (genealogy based mixed model)’ which combines advantages from two powerful GWAS methods: genealogy-based haplotype grouping and MMA. Subjects and Methods: We validated...... at the QTL was low. In scenarios where MAF was high or the QTL affecting the trait had a large effect both GENMIX and MMA performed similarly. Conclusion: In discovery studies, where high-ranking markers are identified and later examined in validation studies, we therefore expect GENMIX to enrich candidates...

  16. An advanced coarse-grained nucleosome core particle model for computer simulations of nucleosome-nucleosome interactions under varying ionic conditions.

    Directory of Open Access Journals (Sweden)

    Yanping Fan

    Full Text Available In the eukaryotic cell nucleus, DNA exists as chromatin, a compact but dynamic complex with histone proteins. The first level of DNA organization is the linear array of nucleosome core particles (NCPs. The NCP is a well-defined complex of 147 bp DNA with an octamer of histones. Interactions between NCPs are of paramount importance for higher levels of chromatin compaction. The polyelectrolyte nature of the NCP implies that nucleosome-nucleosome interactions must exhibit a great influence from both the ionic environment as well as the positively charged and highly flexible N-terminal histone tails, protruding out from the NCP. The large size of the system precludes a modelling analysis of chromatin at an all-atom level and calls for coarse-grained approximations. Here, a model of the NCP that include the globular histone core and the flexible histone tails described by one particle per each amino acid and taking into account their net charge is proposed. DNA wrapped around the histone core was approximated at the level of two base pairs represented by one bead (bases and sugar plus four beads of charged phosphate groups. Computer simulations, using a Langevin thermostat, in a dielectric continuum with explicit monovalent (K(+, divalent (Mg(2+ or trivalent (Co(NH(3(6 (3+ cations were performed for systems with one or ten NCPs. Increase of the counterion charge results in a switch from repulsive NCP-NCP interaction in the presence of K(+, to partial aggregation with Mg(2+ and to strong mutual attraction of all 10 NCPs in the presence of CoHex(3+. The new model reproduced experimental results and the structure of the NCP-NCP contacts is in agreement with available data. Cation screening, ion-ion correlations and tail bridging contribute to the NCP-NCP attraction and the new NCP model accounts for these interactions.

  17. Constitutive modelling of CK45N, AlZnMgCu1.5 and Ti-6Al-4V in a wide range of strain rate and temperature

    Science.gov (United States)

    El-Magd, E.; Treppmann, C.; Korthäuer, M.

    2003-09-01

    Continuous constitutive equations for wide ranges of strain rates and temperatures are gaining increasing importance for adequate simulation of dynamic deformation processes. The flow behaviour of the carbon steel CK45N, the Aluminium Alloy AIZnMgCul.5 and the Titanium Alloy Ti6A14V is studied at different strain rates between 0.001 s^{-1} and 10000 s^{-1} with temperatures varying between 23^{circ}C and 1000^{circ}C at CK45N and Ti6A14V. AIZnMgCul.5 was investigated in a temperature range from 23^{circ}C up to 500^{circ}C. The mechanical behaviour of the three materials over this wide range needs the consideration of different physical deformation mechanisms. In the range of high temperatures and low strain rates stress relaxation due to creep deformation processes are superimposed to the plastic deformation process with a relatively low strain rate sensitivity and temperature dependence. In the range of high strain rates, the damping controlled deformation mechanism is additionally active leading to a high increase of the strain rate sensitivity. In case of steel, a dynamic age hardening mechanism is superimposed causing a stress increase between 300^{circ}C and 600^{circ}C according to strain rate. The correlation between the material parameters and the instability, localisation and damage is studied on the bases of simple models.

  18. Interpolating and Estimating Horizontal Diffuse Solar Irradiation to Provide UK-Wide Coverage: Selection of the Best Performing Models

    Directory of Open Access Journals (Sweden)

    Diane Palmer

    2017-02-01

    Full Text Available Plane-of-array (PoA irradiation data is a requirement to simulate the energetic performance of photovoltaic devices (PVs. Normally, solar data is only available as global horizontal irradiation, for a limited number of locations, and typically in hourly time resolution. One approach to handling this restricted data is to enhance it initially by interpolation to the location of interest; next, it must be translated to PoA data by separately considering the diffuse and the beam components. There are many methods of interpolation. This research selects ordinary kriging as the best performing technique by studying mathematical properties, experimentation and leave-one-out-cross validation. Likewise, a number of different translation models has been developed, most of them parameterised for specific measurement setups and locations. The work presented identifies the optimum approach for the UK on a national scale. The global horizontal irradiation will be split into its constituent parts. Divers separation models were tried. The results of each separation algorithm were checked against measured data distributed across the UK. It became apparent that while there is little difference between procedures (14 Wh/m2 mean bias error (MBE, 12 Wh/m2 root mean square error (RMSE, the Ridley, Boland, Lauret equation (a universal split algorithm consistently performed well. The combined interpolation/separation RMSE is 86 Wh/m2.

  19. Seasonality in cholera dynamics: A rainfall-driven model explains the wide range of patterns in endemic areas

    Science.gov (United States)

    Baracchini, Theo; King, Aaron A.; Bouma, Menno J.; Rodó, Xavier; Bertuzzo, Enrico; Pascual, Mercedes

    2017-10-01

    Seasonal patterns in cholera dynamics exhibit pronounced variability across geographical regions, showing single or multiple peaks at different times of the year. Although multiple hypotheses related to local climate variables have been proposed, an understanding of this seasonal variation remains incomplete. The historical Bengal region, which encompasses the full range of cholera's seasonality observed worldwide, provides a unique opportunity to gain insights on underlying environmental drivers. Here, we propose a mechanistic, rainfall-temperature driven, stochastic epidemiological model which explicitly accounts for the fluctuations of the aquatic reservoir, and analyze with this model the historical dataset of cholera mortality in the Bengal region. Parameters are inferred with a recently developed sequential Monte Carlo method for likelihood maximization in partially observed Markov processes. Results indicate that the hydrological regime is a major driver of the seasonal dynamics of cholera. Rainfall tends to buffer the propagation of the disease in wet regions due to the longer residence times of water in the environment and an associated dilution effect, whereas it enhances cholera resurgence in dry regions. Moreover, the dynamics of the environmental water reservoir determine whether the seasonality is unimodal or bimodal, as well as its phase relative to the monsoon. Thus, the full range of seasonal patterns can be explained based solely on the local variation of rainfall and temperature. Given the close connection between cholera seasonality and environmental conditions, a deeper understanding of the underlying mechanisms would allow the better management and planning of public health policies with respect to climate variability and climate change.

  20. Cardiovascular health promotion for children: a model for a Parish (County)-wide program (implementation and preliminary results).

    Science.gov (United States)

    Berenson, Gerald S

    2010-01-01

    Cardiovascular (CV) risk factors in childhood result in a lifetime burden on the CV system. The Bogalusa Heart Study, a prevention program for children, addresses behaviors and lifestyles associated with CV risk. This prevention program utilizes the substructure of a Parish (County) that can be a model for other areas. All aspects in educating school children-the classroom, physical activity, cafeteria, teachers, and parents with community involvement-are included. The program requires cooperation of parents, schools, physicians, and political and business personnel. Their collaboration helps implement and sustain the program. Understanding the origin of coronary artery disease, hypertension, diabetes, and now the obesity epidemic shows the need to develop a framework for improving lifestyles and behaviors beginning in childhood. In addition to nutrition and exercise, the program addresses tobacco, alcohol, and drug use, and societal problems such as dropping out of school, violent behavior, and teenage pregnancy. An initial accomplishment is the entry into all elementary schools, representing approximately 7000 children. Early results show reduction in obesity, increased physical activity, improved decision making, and healthy attitudes. This public health model is inexpensive by utilizing prior research findings and integrating into community resources. Health education of children is an important aspect of preventive cardiology with a need for pediatric and adult cardiologists' involvement. 2009 Wiley Periodicals, Inc.

  1. Combining land use regression models and fixed site monitoring to reconstruct spatiotemporal variability of NO2concentrations over a wide geographical area.

    Science.gov (United States)

    Cordioli, M; Pironi, C; De Munari, E; Marmiroli, N; Lauriola, P; Ranzi, A

    2017-01-01

    The epidemiological research benefits from an accurate characterization of both spatial and temporal variability of exposure to air pollution. This work aims at proposing a method to combine the high spatial resolution of Land Use Regression (LUR) models with the high temporal resolution of fixed site monitoring data, to model spatiotemporal variability of NO 2 over a wide geographical area in Northern Italy. We developed seasonal LUR models to reconstruct the spatial distribution of a scaling factor that relates local concentrations to those measured at two reference central sites, one for the northern flat area and one for the southern mountain area. We calculated the daily average concentrations at 19 locations spread over the study areas as the product of the local scaling factor and the reference central site concentrations. We evaluated model performance comparing modeled and measured NO 2 data. LUR model's R 2 ranges from 0.76 to 0.92. The main predictors refers substantially to traffic, industrial land use, buildings volume and altitude a.s.l. The model's performance in reproducing measured concentrations was satisfactory. The temporal variability of concentrations was well captured: Spearman correlation between model and measures was >0.7 for almost all sites. Model's average absolute errors were in the order of 10μgm -3 . The model for the southern area tends to overestimate measured concentrations. Our modeling framework was able to reproduce spatiotemporal differences in NO 2 concentrations. This kind of model is less data-intensive than usual regional atmospheric models and it may be very helpful to assess population exposure within studies in which individual relevant exposure occurs along periods of days or months. Copyright © 2016 Elsevier B.V. All rights reserved.

  2. Digital repetitive control under varying frequency conditions

    CERN Document Server

    Ramos, Germán A; Olm, Josep M

    2013-01-01

    The tracking/rejection of periodic signals constitutes a wide field of research in the control theory and applications area. Repetitive Control has proven to be an efficient way to face this topic. However, in some applications the frequency of the reference/disturbance signal is time-varying or uncertain. This causes an important performance degradation in the standard Repetitive Control scheme. This book presents some solutions to apply Repetitive Control in varying frequency conditions without loosing steady-state performance. It also includes a complete theoretical development and experimental results in two representative systems. The presented solutions are organized in two complementary branches: varying sampling period Repetitive Control and High Order Repetitive Control. The first approach allows dealing with large range frequency variations while the second allows dealing with small range frequency variations. The book also presents applications of the described techniques to a Roto-magnet plant and...

  3. A genetic predictive model for canine hip dysplasia: integration of Genome Wide Association Study (GWAS and candidate gene approaches.

    Directory of Open Access Journals (Sweden)

    Nerea Bartolomé

    Full Text Available Canine hip dysplasia is one of the most prevalent developmental orthopedic diseases in dogs worldwide. Unfortunately, the success of eradication programs against this disease based on radiographic diagnosis is low. Adding the use of diagnostic genetic tools to the current phenotype-based approach might be beneficial. The aim of this study was to develop a genetic prognostic test for early diagnosis of hip dysplasia in Labrador Retrievers. To develop our DNA test, 775 Labrador Retrievers were recruited. For each dog, a blood sample and a ventrodorsal hip radiograph were taken. Dogs were divided into two groups according to their FCI hip score: control (A/B and case (D/E. C dogs were not included in the sample. Genetic characterization combining a GWAS and a candidate gene strategy using SNPs allowed a case-control population association study. A mathematical model which included 7 SNPs was developed using logistic regression. The model showed a good accuracy (Area under the ROC curve = 0.85 and was validated in an independent population of 114 dogs. This prognostic genetic test represents a useful tool for choosing the most appropriate therapeutic approach once genetic predisposition to hip dysplasia is known. Therefore, it allows a more individualized management of the disease. It is also applicable during genetic selection processes, since breeders can benefit from the information given by this test as soon as a blood sample can be collected, and act accordingly. In the authors' opinion, a shift towards genomic screening might importantly contribute to reducing canine hip dysplasia in the future. In conclusion, based on genetic and radiographic information from Labrador Retrievers with hip dysplasia, we developed an accurate predictive genetic test for early diagnosis of hip dysplasia in Labrador Retrievers. However, further research is warranted in order to evaluate the validity of this genetic test in other dog breeds.

  4. Solutions of the Two-Dimensional Hubbard Model: Benchmarks and Results from a Wide Range of Numerical Algorithms

    Directory of Open Access Journals (Sweden)

    2015-12-01

    Full Text Available Numerical results for ground-state and excited-state properties (energies, double occupancies, and Matsubara-axis self-energies of the single-orbital Hubbard model on a two-dimensional square lattice are presented, in order to provide an assessment of our ability to compute accurate results in the thermodynamic limit. Many methods are employed, including auxiliary-field quantum Monte Carlo, bare and bold-line diagrammatic Monte Carlo, method of dual fermions, density matrix embedding theory, density matrix renormalization group, dynamical cluster approximation, diffusion Monte Carlo within a fixed-node approximation, unrestricted coupled cluster theory, and multireference projected Hartree-Fock methods. Comparison of results obtained by different methods allows for the identification of uncertainties and systematic errors. The importance of extrapolation to converged thermodynamic-limit values is emphasized. Cases where agreement between different methods is obtained establish benchmark results that may be useful in the validation of new approaches and the improvement of existing methods.

  5. Genome-wide long non-coding RNA screening, identification and characterization in a model microorganism Chlamydomonas reinhardtii.

    Science.gov (United States)

    Li, Hui; Wang, Yuting; Chen, Meirong; Xiao, Peng; Hu, Changxing; Zeng, Zhiyong; Wang, Chaogang; Wang, Jiangxin; Hu, Zhangli

    2016-09-23

    Microalgae are regarded as the most promising biofuel candidates and extensive metabolic engineering were conducted but very few improvements were achieved. Long non-coding RNA (lncRNA) investigation and manipulation may provide new insights for this issue. LncRNAs refer to transcripts that are longer than 200 nucleotides, do not encode proteins but play important roles in eukaryotic gene regulation. However, no information of potential lncRNAs has been reported in eukaryotic alga. Recently, we performed RNA sequencing in Chlamydomonas reinhardtii, and obtained totally 3,574 putative lncRNAs. 1440 were considered as high-confidence lncRNAs, including 936 large intergenic, 310 intronic and 194 anti-sense lncRNAs. The average transcript length, ORF length and numbers of exons for lncRNAs are much less than for genes in this green alga. In contrast with human lncRNAs of which more than 98% are spliced, the percentage in C. reinhardtii is only 48.1%. In addition, we identified 367 lncRNAs responsive to sulfur deprivation, including 36 photosynthesis-related lncRNAs. This is the first time that lncRNAs were explored in the unicellular model organism C. reinhardtii. The lncRNA data could also provide new insights into C. reinhardtii hydrogen production under sulfur deprivation.

  6. Amyloid Accumulation Drives Proteome-wide Alterations in Mouse Models of Alzheimer’s Disease-like Pathology

    <