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Sample records for analysis phenotype anchoring

  1. Mercury-induced hepatotoxicity in zebrafish: in vivo mechanistic insights from transcriptome analysis, phenotype anchoring and targeted gene expression validation

    Directory of Open Access Journals (Sweden)

    Mathavan Sinnakaruppan

    2010-03-01

    Full Text Available Abstract Background Mercury is a prominent environmental contaminant that causes detrimental effects to human health. Although the liver has been known to be a main target organ, there is limited information on in vivo molecular mechanism of mercury-induced toxicity in the liver. By using transcriptome analysis, phenotypic anchoring and validation of targeted gene expression in zebrafish, mercury-induced hepatotoxicity was investigated and a number of perturbed cellular processes were identified and compared with those captured in the in vitro human cell line studies. Results Hepato-transcriptome analysis of mercury-exposed zebrafish revealed that the earliest deregulated genes were associated with electron transport chain, mitochondrial fatty acid beta-oxidation, nuclear receptor signaling and apoptotic pathway, followed by complement system and proteasome pathway, and thereafter DNA damage, hypoxia, Wnt signaling, fatty acid synthesis, gluconeogenesis, cell cycle and motility. Comparative meta-analysis of microarray data between zebrafish liver and human HepG2 cells exposed to mercury identified some common toxicological effects of mercury-induced hepatotoxicity in both models. Histological analyses of liver from mercury-exposed fish revealed morphological changes of liver parenchyma, decreased nucleated cell count, increased lipid vesicles, glycogen and apoptotic bodies, thus providing phenotypic evidence for anchoring of the transcriptome analysis. Validation of targeted gene expression confirmed deregulated gene-pathways from enrichment analysis. Some of these genes responding to low concentrations of mercury may serve as toxicogenomic-based markers for detection and health risk assessment of environmental mercury contaminations. Conclusion Mercury-induced hepatotoxicity was triggered by oxidative stresses, intrinsic apoptotic pathway, deregulation of nuclear receptor and kinase activities including Gsk3 that deregulates Wnt signaling

  2. ANCHORING EFFECT ANALYSIS OF TENSIONED BOLTS

    Institute of Scientific and Technical Information of China (English)

    夏建中

    1997-01-01

    The paper analyses quantitatively the anchoring effect of tensioned bolts on surrounding rock strength, and defines two concepts: one is the surrounding rock strength increased amount △τ13 and the other is the strength influence factor k. The anchoring effect of tensioned bolts is considered to increase a strength increased amount △τ13 where △τ13 is the product k and tensioned load p, i. e. △τ13= kp, where k is a function of two variables x and y. The distributive properties both △τ13 and k are also discussed in the paper, obtaining some useful results for designing bolting support parameters.

  3. An Analysis for Cross Beam-Ground Anchor Reinforcement

    Institute of Scientific and Technical Information of China (English)

    Xu Yingzi; Zhang Baiqing; Tang Huiming

    2005-01-01

    With the rapid development of water facilities, hydroelectric projects, highways and railways in China, beam-anchor reinforcement has been widely used to stabilize slopes in recent years. But the theory for the design of beam-anchor reinforcement is far behind the application. Cross beam-ground anchor reinforcement is a combination of beams and anchors forming a new structure to prevent slope sliding. The forces in the beams are discussed using theoretical analysis and numerical modeling. The Winkler model is used to analyze the beams, and reasonable values of λ, length, spacing and cantilevered length for the beams are determined through a theoretical analysis. A three-dimensional finite element method is adopted to model the interaction of the beams and soils and a structure analysis is applied to treat the beams and to study the stress distribution in external and internal beams. The analytical results show that it is better to satisfy λ≥2π, the spacing between anchors ls should be lsλ<π/2 and cantilever length should be (0.3-0.5)ls for the optimum design. The numerical results show that the same design can be used for all beams in different directions, including the internal and external beams. The application of the analytical method for reinforcement beam analysis is acceptable. It is better to choose a safety coefficient of 1.3 for design based on the analytical method for safety.

  4. Proteomic analysis of glycosylphosphatidylinositol-anchored membrane proteins

    DEFF Research Database (Denmark)

    Elortza, Felix; Nühse, Thomas S; Foster, Leonard J;

    2003-01-01

    Glycosylphosphatidylinositol-anchored proteins (GPI-APs) are a functionally and structurally diverse family of post-translationally modified membrane proteins found mostly in the outer leaflet of the plasma membrane in a variety of eukaryotic cells. Although the general role of GPI-APs remains...... development. We here present a general mass spectrometry-based proteomic "shave-and-conquer" strategy that specifically targets GPI-APs. Using a combination of biochemical methods, mass spectrometry, and computational sequence analysis we identified six GPI-APs in a Homo sapiens lipid raft-enriched fraction...... and 44 GPI-APs in an Arabidopsis thaliana membrane preparation, representing the largest experimental dataset of GPI-anchored proteins to date....

  5. Optimization Analysis Model of Self-Anchored Suspension Bridge

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    Pengzhen Lu

    2014-01-01

    Full Text Available The hangers of self-anchored suspension bridge need to be tensioned suitably during construction. In view of this point, a simplified optimization calculation method of cable force for self-anchored suspension bridge has been developed based on optimization theories, such as minimum bending energy method, and internal force balanced method, influence matrix method. Meanwhile, combined with the weak coherence of main cable and the adjacently interaction of hanger forces, a simplified analysis method is developed using MATLAB, which is then compared with the optimization method that consider the main cable's geometric nonlinearity with software ANSYS in an actual example bridge calculation. This contrast proves the weak coherence of main cable displacement and the limitation of the adjacent cable force influence. Furthermore, a tension program that is of great reference value has been developed; some important conclusions, advices, and attention points have been summarized.

  6. Analysis of Glenoid Inter-anchor Distance with an All-Suture Anchor System

    Science.gov (United States)

    Kramer, Jonathan; Robinson, Sean; Dutton, Pascual; Dickinson, Ephraim; Rodriguez, John Paul; Camisa, William; Leasure, Jeremi M.; Montgomery, William H.

    2016-01-01

    Objectives: Arthroscopic shoulder stabilization using suture anchors are commonly used techniques. More recently developed all-suture systems employ smaller diameter anchors, which increase repair contact area and allow greater placement density on narrow surfaces such as the glenoid. Our goal is investigate the strength characteristics of various inter-anchor distances in a human glenoid model. Methods: Twelve fresh-frozen human cadaveric glenoids were potted after the labrum was excised. The glenoids were then implanted with 1.4 mm all-suture anchors (Juggerknot, Biomet, Warsaw, IN) at varying inter-anchor distances. Anchors were implanted adjacent to one another or at 2 mm, 3 mm, or 5 mm distances using a template with pre-drilled holes. The glenoids were then underwent single cycle pullout testing using a test frame (Instron 8521, Instron Inc., Norwood, MA). A 5 N preload was applied to the construct and the actuator was driven away from the shoulder at a rate of 12.5mm/s as seen in Figure 1. Force and displacement were collected from the test frame actuator at a rate of 500 Hz. The primary outcomes were failure strength and stiffness. Stiffness was calculated from the initial linear region of the force displacement curve. Failure strength was defined as the first local maximum inflection point in the force displacement curve. Results: During load to fail testing, all but three of the specimens had both anchors pull out of the glenoid. The other mode of failure included one or both of the sutures failing. Stiffness was 13.52 ± 3.8, 17.97 ± 5.02, 17.59 ± 4.65 and 18.95 ± 4.67 N/mm for the adjacent, 2 mm, 3 mm and 5 mm treatment groups as shown Table 1. The adjacent group had a significantly lower stiffness compared to the other treatment groups. Failure strength was 48.68 ± 20.64, 76.16 ± 23.78, 73.19 ± 35.83 and 87.04 ± 34.67 N for the adjacent, 2 mm, 3 mm and 5 mm treatment groups as shown in Table 1. The adjacent group had a significantly lower

  7. Two-Dimensional Large Deformation Finite Element Analysis for the Pulling-up of Plate Anchor

    Institute of Scientific and Technical Information of China (English)

    WANG Dong; HU Yu-xia; JIN Xia

    2006-01-01

    Based on mesh regeneration and stress interpolation from an old mesh to a new one, a large deformation finite element model is developed for the study of the behaviour of circular plate anchors subjected to uplift loading. For the determination of the distributions of stress components across a clay foundation, the Recovery by Equilibrium in Patches is extended to plastic analyses. ABAQUS, a commercial finite element package, is customized and linked into our program so as to keep automatic and efficient running of large deformation calculation. The quality of stress interpolation is testified by evaluations of Tresca stress and nodal reaction forces. The complete pulling-up processes of plate anchors buried in homogeneous clay are simulated, and typical pulling force-displacement responses of a deep anchor and a shallow anchor are compared. Different from the results of previous studies, large deformation analysis is of the capability of estimating the breakaway between the anchor bottom and soils. For deep anchors, the variation of mobilized uplift resistance with anchor settlement is composed of three stages, and the initial buried depths of anchors affect the separation embedment slightly. The uplift bearing capacity of deep anchors is usually higher than that of shallow anchors.

  8. Proteomic analysis of GPI-anchored membrane proteins

    DEFF Research Database (Denmark)

    Jung, Hye Ryung; Jensen, Ole Nørregaard

    2006-01-01

    Glycosyl-phosphatidyl-inositol-anchored proteins (GPI-APs) represent a subset of post-translationally modified proteins that are tethered to the outer leaflet of the plasma membrane via a C-terminal GPI anchor. GPI-APs are found in a variety of eukaryote species, from pathogenic microorganisms...

  9. Spectral Analysis of Surface Wave for Empirical Elastic Design of Anchored Foundations

    Directory of Open Access Journals (Sweden)

    S. E. Chen

    2012-01-01

    Full Text Available Helical anchors are vital support components for power transmission lines. Failure of a single anchor can lead to the loss of an entire transmission line structure which results in the loss of power for downstream community. Despite being important, it is not practical to use conventional borehole method of subsurface exploration, which is labor intensive and costly, for estimating soil properties and anchor holding capacity. This paper describes the use of an empirical and elasticity-based design technique coupled with the spectral analysis of surface wave (SASW technique to provide subsurface information for anchor foundation designs. Based on small-strain wave propagation, SASW determines shear wave velocity profile which is then correlated to anchor holding capacity. A pilot project involving over 400 anchor installations has been performed and demonstrated that such technique is reliable and can be implemented into transmission line structure designs.

  10. Knowledge-based analysis of phenotypes

    KAUST Repository

    Hoendorf, Robert

    2016-01-27

    Phenotypes are the observable characteristics of an organism, and they are widely recorded in biology and medicine. To facilitate data integration, ontologies that formally describe phenotypes are being developed in several domains. I will describe a formal framework to describe phenotypes. A formalized theory of phenotypes is not only useful for domain analysis, but can also be applied to assist in the diagnosis of rare genetic diseases, and I will show how our results on the ontology of phenotypes is now applied in biomedical research.

  11. Multivariate Analysis of Genotype-Phenotype Association.

    Science.gov (United States)

    Mitteroecker, Philipp; Cheverud, James M; Pavlicev, Mihaela

    2016-04-01

    With the advent of modern imaging and measurement technology, complex phenotypes are increasingly represented by large numbers of measurements, which may not bear biological meaning one by one. For such multivariate phenotypes, studying the pairwise associations between all measurements and all alleles is highly inefficient and prevents insight into the genetic pattern underlying the observed phenotypes. We present a new method for identifying patterns of allelic variation (genetic latent variables) that are maximally associated-in terms of effect size-with patterns of phenotypic variation (phenotypic latent variables). This multivariate genotype-phenotype mapping (MGP) separates phenotypic features under strong genetic control from less genetically determined features and thus permits an analysis of the multivariate structure of genotype-phenotype association, including its dimensionality and the clustering of genetic and phenotypic variables within this association. Different variants of MGP maximize different measures of genotype-phenotype association: genetic effect, genetic variance, or heritability. In an application to a mouse sample, scored for 353 SNPs and 11 phenotypic traits, the first dimension of genetic and phenotypic latent variables accounted for >70% of genetic variation present in all 11 measurements; 43% of variation in this phenotypic pattern was explained by the corresponding genetic latent variable. The first three dimensions together sufficed to account for almost 90% of genetic variation in the measurements and for all the interpretable genotype-phenotype association. Each dimension can be tested as a whole against the hypothesis of no association, thereby reducing the number of statistical tests from 7766 to 3-the maximal number of meaningful independent tests. Important alleles can be selected based on their effect size (additive or nonadditive effect on the phenotypic latent variable). This low dimensionality of the genotype-phenotype map

  12. THE FRACTURE ANALYSIS OF MINE RESIN ANCHOR%锚杆的断裂分析

    Institute of Scientific and Technical Information of China (English)

    赵衍芳; 陈红

    2012-01-01

    通过对断裂的锚杆进行宏观断口、微观组织及力学性能分析,认为加工锚杆的模具孔过小是导致锚杆产生冷作硬化而脆断的主要原因。%Based on the fracture of the anchor to macroscopic fracture, microstructure and mechanical properties analysis, think the processing anchor mold hole is too small to anchor to generate cold hardening and brittle fracture are the main causes.

  13. Analysis of Influencing Factors on the Anchoring Effect of Prestressed Anchor Cable%预应力锚索作用效应影响分析

    Institute of Scientific and Technical Information of China (English)

    郑炎

    2015-01-01

    介绍了岩体三维有限元模型及其计算结果,分析了锚固角度和布锚间距对锚固效应的影响,结果表明,锚索与水平面的夹角对锚固效应的影响比较明显,建议在预应力锚索设计过程中,对锚索角度进行优化设计,以此对锚索布置间距进行优化,选择合适的锚索布置排数,以达到预期的加固效果。%Several factors that could influence the anchoring effect of the prestressed anchor cable are studies with a three-dimensional finite element analysis, including the anchoring angle and cable spacing.It shows that the angle be-tween the anchor cable and the horizontal plane is of the greatest influence on the anchoring effect.Thus, an optimiza-tion on the anchoring angle and then the cable spacing is recommended in the design of the prestressed anchor cable, so that a more suitable arrangement scheme can be obtained and a satisfying reinforcement effect can be guaranteed.

  14. Analysis of Pena Shokeir phenotype.

    Science.gov (United States)

    Hall, J G

    1986-09-01

    At this point in time, we recognize that "Pena Shokeir" is not a diagnosis or a specific syndrome but rather a description of a phenotype produced by fetal akinesia or decreased in utero movement. In its "full blown" form, it is characterized by polyhydramnios, intrauterine growth retardation, pulmonary hypoplasia, craniofacial and limb anomalies, congenital contractures, short umbilical cord, and lethality. From the cases thus far reported, we would anticipate that the phenotype is present in a very heterogeneous group of disorders--heterogeneous both with regard to the specific anomalies present and with regard to the causes (which must include many environmental agents and multiple genetic forms). One challenge for the future is to better describe and delineate specific entities. In the meantime, we would do well to use the terms "Pena Shokeir phenotype" or "fetal akinesia/hypokinesia sequence," which do not imply a single entity. There are many practical aspects of recognizing this phenotype. The presence of any one of the cardinal signs of the fetal akinesia/hypokinesia sequence should alert the physician to look for the other associated anomalies, since specific treatment may be indicated, and catch-up or compensatory growth may occur, if given a chance. The ability to provide prenatal diagnosis and perhaps prenatal treatment in the future may allow us to alter dramatically the natural history of some cases. In others, we need to establish when treatment is possible and when it gives no benefit. Perhaps the most important insight gained from the study of the fetal akinesia sequence is the reaffirmation of the concept that function is an integral part of normal development. Specific structures do not develop in isolation but are part of a carefully timed and integrated system. The "use" of a structure in utero is necessary for its continuing and normal development. The old adage "use it or lose it" seems to apply just as appropriately to prenatal normal

  15. Analysis of Cracking Mode of Anchor Structure of Underground Engineering Induced by Reinforcement Corrosion

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    Wantao Ding

    2014-02-01

    Full Text Available Based on elastic theory and assumption of maximum tensile-stress failure criterion, together with construction process of anchor structure and rust expansion critical process, this study proposed a simplified reinforcement rust expansion mechanical model of anchor structure system. Elastic criterion of different initial cracking mode was rewarded under different stress ratios. According to analysis of critical cracking mode of different medium, cracking order of mortar and surrounding rock depended on their material parameters, in-situ stress and thickness of mortar cover. Critical cracking conditions of different medium without effect of in-situ stress was the same as that of considering in-situ stress while k is equal to 3 or 1/3. And engineering example shows that three different cracking modes exist under different stress ratios. The result provides a useful reference for analysis of mechanical deterioration mechanism of anchor structure and design of support structure of underground engineering.

  16. Mechanical mechanism analysis of tension type anchor based on shear displacement method

    Institute of Scientific and Technical Information of China (English)

    XIAO Shu-jun; CHEN Chang-fu

    2008-01-01

    Based on the fact that the shear stress along anchorage segment is neither linearly nor uniformly distributed, the load transfer mechanism of the tension type anchor was studied and the mechanical characteristic of anchorage segment was analyzed. Shear stress-strain relationship of soil surrounding anchorage body was simplified into three-folding-lines model consisting of elastic phase, elasto-plastic phase and residual phase considering its softening eharaeteristic. Meanwhile, shear displacement method that has been extensively used in the analysis of pile foundation was introduced. Based on elasto-plastic theory, the distributions of displacement, shear stress and axial force along the anchorage segment of tension type anchor were obtained, and the formula for calculating the elastic limit load was also developed accordingly. Finally, an example was given to discuss the variation of stress and displacement in the anchorage segment with the loads exerted on the anchor, and a program was worked out to calculate the anchor maximum bearing capacity. The influence of some parameters on the anchor bearing capacity was discussed, and effective anchorage length was obtained simultaneously. The results show that the shear stress first increases and then decreases and finally trends to theresidual strength with increase of distance from bottom of the anchorage body, the displacement increases all the time with theincrease of distance from bottom of the anchorage body, and the increase of velocity gradually becomes greater.

  17. MPHASYS: a mouse phenotype analysis system

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    Mian I

    2007-06-01

    Full Text Available Abstract Background Systematic, high-throughput studies of mouse phenotypes have been hampered by the inability to analyze individual animal data from a multitude of sources in an integrated manner. Studies generally make comparisons at the level of genotype or treatment thereby excluding associations that may be subtle or involve compound phenotypes. Additionally, the lack of integrated, standardized ontologies and methodologies for data exchange has inhibited scientific collaboration and discovery. Results Here we introduce a Mouse Phenotype Analysis System (MPHASYS, a platform for integrating data generated by studies of mouse models of human biology and disease such as aging and cancer. This computational platform is designed to provide a standardized methodology for working with animal data; a framework for data entry, analysis and sharing; and ontologies and methodologies for ensuring accurate data capture. We describe the tools that currently comprise MPHASYS, primarily ones related to mouse pathology, and outline its use in a study of individual animal-specific patterns of multiple pathology in mice harboring a specific germline mutation in the DNA repair and transcription-specific gene Xpd. Conclusion MPHASYS is a system for analyzing multiple data types from individual animals. It provides a framework for developing data analysis applications, and tools for collecting and distributing high-quality data. The software is platform independent and freely available under an open-source license 1.

  18. Hierarchical genetic clusters for phenotypic analysis

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    Luiza Barbosa da Matta

    2015-10-01

    Full Text Available Methods to obtain phenotypic information were evaluated to help breeders choosing the best methodology for analysis of genetic diversity in backcross populations. Phenotypes were simulated for 13 characteristics generated in 10 populations with 100 individuals each. Genotypic information was generated from 100 loci of which 20 were taken at random to determine the characteristics expressing two alleles. Dissimilarity measures were calculated, and genetic diversity was analyzed through hierarchical clustering and graphic projection of the distances. A backcross was performed from the two most divergent populations. A set of characteristics with variable heritability was taken into account. The environmental effect was simulated assuming . For hierarchical clusters, the following methods were used: Gower Method, average linkage within the cluster, average linkage among clusters, the furthest neighbor method, the nearest neighbor method, Ward’s method, and the median method. The environmental effect and heritability of the analyzed variables had an influence on the pattern of hierarchical clustering populations according to the backcrossed generations. The nearest neighbor method was the most efficient in reconstructing the system of backcrossing, and it presented the highest cophenetic correlation. The efficiency of the nearest neighbor method was the highest when the analysis involved characteristics of high heritability.

  19. Anchor reinforcements

    Energy Technology Data Exchange (ETDEWEB)

    Levkovich, P.Ye.; Sal' nikov, V.K.; Savich, N.S.

    1980-11-30

    An anchor reinforcement includes an anchor shaft, an elastic jig with a separator wall having compartments placed parallely along it and filled with reinforcement material and a device for destroying the jig wall separator. To quickly put the anchor in place and increase the reliability of the reinforcement by mixing the reinforcement material components better, the device for destroying the jig separator wall was made in the shape of a shovel, fastened to the anchor shaft and the separator wall has a longitudinal hollow for holding the anchor shaft/shovel.

  20. Analysis of Anchors and Bracing Configurations for Personal Fall Arrest Systems in Residential Construction

    OpenAIRE

    Morris, Justin Collins

    2013-01-01

    AbstractAnalysis of Anchors and Bracing Configurations with Personal Fall Arrest Systems in Residential ConstructionJustin Collins Morris    Falls continue to be a major problem in the residential construction industry and account for a large number of injuries and fatalities each year (US Department of Labor, 2012).  The effects of a fall are catastrophic to the workers and their families as well as the construction company and surrounding community.  Prevention of these incidents has been t...

  1. Phenotypically anchored transcriptome profiling of developmental exposure to the antimicrobial agent, triclosan, reveals hepatotoxicity in embryonic zebrafish.

    Science.gov (United States)

    Haggard, Derik E; Noyes, Pamela D; Waters, Katrina M; Tanguay, Robert L

    2016-10-01

    Triclosan (TCS) is an antimicrobial agent commonly found in a variety of personal care products and cosmetics. TCS readily enters the environment through wastewater and is detected in human plasma, urine, and breast milk due to its widespread use. Studies have implicated TCS as a disruptor of thyroid and estrogen signaling; therefore, research examining the developmental effects of TCS is warranted. In this study, we used embryonic zebrafish to investigate the developmental toxicity and potential mechanism of action of TCS. Embryos were exposed to graded concentrations of TCS from 6 to 120hours post-fertilization (hpf) and the concentration where 80% of the animals had mortality or morbidity at 120hpf (EC80) was calculated. Transcriptomic profiling was conducted on embryos exposed to the EC80 (7.37μM). We identified a total of 922 significant differentially expressed transcripts (FDR adjusted P-value≤0.05; fold change ≥2). Pathway and gene ontology enrichment analyses identified biological networks and transcriptional hubs involving normal liver functioning, suggesting TCS may be hepatotoxic in zebrafish. Tissue-specific gene enrichment analysis further supported the role of the liver as a target organ for TCS toxicity. We also examined the in vitro bioactivity profile of TCS reported by the ToxCast screening program. TCS had a diverse bioactivity profile and was a hit in 217 of the 385 assay endpoints we identified. We observed similarities in gene expression and hepatic steatosis assays; however, hit data for TCS were more concordant with the hypothesized CAR/PXR activity of TCS from rodent and human in vitro studies. PMID:27538710

  2. Analysis on the anchor mechanism of the full length resin bolt

    Institute of Scientific and Technical Information of China (English)

    宋彦波; 刘洪涛

    2003-01-01

    The purpose of this paper is to reveal the stress distribution characteristic along the full length anchor bolt. Based on the mechanic model set up, the author calculated the anchor mechanism of the full length resin rock-bolt. The stress distribution characteristic is different according to different type of surrounding-rock. The conclusion is important to optimize the roadway bolt support design.

  3. Theoretical analysis of a new segmented anchoring style in weakly cemented soft surrounding rock

    Institute of Scientific and Technical Information of China (English)

    Zhao Zenghui; Wang Weiming; Wang Lihua

    2016-01-01

    According to the tensile failure of rock bolt in weakly cemented soft rock, this paper presents a new seg-mented anchoring style in order to weaken the cumulative effect of anchoring force associated with the large deformation. Firstly, a segmented mechanical model was established in which free and anchoring section of rock bolt were respectively arranged in different deformation zones. Then, stress and displace-ment in elastic non-anchoring zone, elastic anchoring zone, elastic sticking zone, softening sticking zone and broken zone were derived respectively based on neural theory and tri-linear strain softening constitutive model of soft rock. Results show that the anchoring effect can be characterized by a supporting parameter β. With its increase, the peak value of tangential stress gradually moves to the roadway wall, and the radial stress significantly increases, which means the decrease of equivalent plastic zone and improvement of confining effect provided by anchorage body. When β increases to 0.72, the equivalent plastic zone disappears, and stresses tend to be the elastic solutions. In addition, the anchoring effect on the displacement of surrounding rock can be quantified by a normalization factorδ.

  4. Latent cluster analysis of ALS phenotypes identifies prognostically differing groups.

    Directory of Open Access Journals (Sweden)

    Jeban Ganesalingam

    Full Text Available BACKGROUND: Amyotrophic lateral sclerosis (ALS is a degenerative disease predominantly affecting motor neurons and manifesting as several different phenotypes. Whether these phenotypes correspond to different underlying disease processes is unknown. We used latent cluster analysis to identify groupings of clinical variables in an objective and unbiased way to improve phenotyping for clinical and research purposes. METHODS: Latent class cluster analysis was applied to a large database consisting of 1467 records of people with ALS, using discrete variables which can be readily determined at the first clinic appointment. The model was tested for clinical relevance by survival analysis of the phenotypic groupings using the Kaplan-Meier method. RESULTS: The best model generated five distinct phenotypic classes that strongly predicted survival (p<0.0001. Eight variables were used for the latent class analysis, but a good estimate of the classification could be obtained using just two variables: site of first symptoms (bulbar or limb and time from symptom onset to diagnosis (p<0.00001. CONCLUSION: The five phenotypic classes identified using latent cluster analysis can predict prognosis. They could be used to stratify patients recruited into clinical trials and generating more homogeneous disease groups for genetic, proteomic and risk factor research.

  5. Pipe-anchor discontinuity analysis utilizing power series solutions, Bessel functions, and Fourier series

    International Nuclear Information System (INIS)

    One of the paradigmatic classes of problems that frequently arise in piping stress analysis discipline is the effect of local stresses created by supports and restraints attachments. Over the past 20 years, concerns have been identified by both regulatory agencies in the nuclear power industry and others in the process and chemicals industries concerning the effect of various stiff clamping arrangements on the expected life of the pipe and its various piping components. In many of the commonly utilized geometries and arrangements of pipe clamps, the elasticity problem becomes the axisymmetric stress and deformation determination in a hollow cylinder (pipe) subjected to the appropriate boundary conditions and respective loads per se. One of the geometries that serve as a pipe anchor is comprised of two pipe clamps that are bolted tightly to the pipe and affixed to a modified shoe-type arrangement. The shoe is employed for the purpose of providing an immovable base that can be easily attached either by bolting or welding to a structural steel pipe rack. Over the past 50 years, the computational tools available to the piping analyst have changed dramatically and thereby have caused the implementation of solutions to the basic problems of elasticity to change likewise. The need to obtain closed form elasticity solutions, however, has always been a driving force in engineering. The employment of symbolic calculus that is currently available through numerous software packages makes closed form solutions very economical. This paper briefly traces the solutions over the past 50 years to a variety of axisymmetric stress problems involving hollow circular cylinders employing a Fourier series representation. In the present example, a properly chosen Fourier series represent the mathematical simulation of the imposed axial displacements on the outside diametrical surface. A general solution technique is introduced for the axisymmetric discontinuity stresses resulting from an

  6. ANALYSIS ON INCREMENTAL COHESION OF SURROUNDING ROCK DUE TO PRESTRESSED CABLE ANCHOR

    Institute of Scientific and Technical Information of China (English)

    夏建中; 闫莫明; 滕年保; 李方政

    1998-01-01

    A new method for determining the incremental cohesion △Cm of surrounding rock due toprestressed cable anchor is presented, and the formulas for △Cm are deduced and ACredistributions also are discussed, based on the two anchorage effects, one is the effect with theprestressed value △Q3 of cable anchor improving the stress state of surrounding rock andincreasing the surrounding rock strength, the other is the fully encapsulated effect. Thedetermined incremental cohesion △Cm is subjected to the model test and field measurement in thereferences, and coincides well with those tested results. The formulas for △Cm can be used indesigning supoport parameters and related numerical analyses of prestressed cable anchor.

  7. COPD phenotype description using principal components analysis

    DEFF Research Database (Denmark)

    Roy, Kay; Smith, Jacky; Kolsum, Umme;

    2009-01-01

    BACKGROUND: Airway inflammation in COPD can be measured using biomarkers such as induced sputum and Fe(NO). This study set out to explore the heterogeneity of COPD using biomarkers of airway and systemic inflammation and pulmonary function by principal components analysis (PCA). SUBJECTS AND METH...

  8. Parameter analysis of anchor bolt support for large-span and jointed rock mass

    Institute of Scientific and Technical Information of China (English)

    LI Xi-bing; ZHOU Zi-long; LI Qi-yue; HU Liu-qing

    2005-01-01

    In order to obtain the optimal parameters of anchor bolt supporting system for large-span and jointed rock mass in Kaiyang Phosphor Mine, it is expensive and unavailable with the method of in-situ experiments. This paper describes a numerical modeling with discrete element method for the supporting effects of different type of anchor bolts. The anchor bolts with variant length of 0.5 m, 0.8 m, 1.0 m, diameter of 10 mm, 15 mm, 20 mm, setting spacing of 3.0 m, 2.5 m, 2.0 m, and setting angle of 10°, 20°, 30°, are simulated respectively. The results show that there exist optimal parameters of anchor bolt support for large-span and jointed rock mass. For the bolt support of the concerning, the optimal length is 2.5-3.5 m, the diameter is 25-35 mm, the spacing is 0.5-0.6 m, and the setting angle is 105°.

  9. Arrows as Anchors: An Analysis of the Material Features of Electric Field Vector Arrows

    Science.gov (United States)

    Gire, Elizabeth; Price, Edward

    2014-01-01

    Representations in physics possess both physical and conceptual aspects that are fundamentally intertwined and can interact to support or hinder sense making and computation. We use distributed cognition and the theory of conceptual blending with material anchors to interpret the roles of conceptual and material features of representations in…

  10. Robust and sensitive analysis of mouse knockout phenotypes.

    Directory of Open Access Journals (Sweden)

    Natasha A Karp

    Full Text Available A significant challenge of in-vivo studies is the identification of phenotypes with a method that is robust and reliable. The challenge arises from practical issues that lead to experimental designs which are not ideal. Breeding issues, particularly in the presence of fertility or fecundity problems, frequently lead to data being collected in multiple batches. This problem is acute in high throughput phenotyping programs. In addition, in a high throughput environment operational issues lead to controls not being measured on the same day as knockouts. We highlight how application of traditional methods, such as a Student's t-Test or a 2-way ANOVA, in these situations give flawed results and should not be used. We explore the use of mixed models using worked examples from Sanger Mouse Genome Project focusing on Dual-Energy X-Ray Absorptiometry data for the analysis of mouse knockout data and compare to a reference range approach. We show that mixed model analysis is more sensitive and less prone to artefacts allowing the discovery of subtle quantitative phenotypes essential for correlating a gene's function to human disease. We demonstrate how a mixed model approach has the additional advantage of being able to include covariates, such as body weight, to separate effect of genotype from these covariates. This is a particular issue in knockout studies, where body weight is a common phenotype and will enhance the precision of assigning phenotypes and the subsequent selection of lines for secondary phenotyping. The use of mixed models with in-vivo studies has value not only in improving the quality and sensitivity of the data analysis but also ethically as a method suitable for small batches which reduces the breeding burden of a colony. This will reduce the use of animals, increase throughput, and decrease cost whilst improving the quality and depth of knowledge gained.

  11. Genotypic and Phenotypic Analysis of Fasciola Isolates

    Directory of Open Access Journals (Sweden)

    SN Mosavinasab

    2009-07-01

    Full Text Available "nBackground: To identify the fasciolid species by morphometric and molecular methods in Zanjan, north­west of Iran. "nMethods: Adult Fasciola worms (n=584 were obtained from cattle and sheep in Zanjan slaughterhouse in 2007. Living flukes were washed, then worms' images were taken by 3CCD camera and finally apical zone of each worm was obtained. Morphometric values such as body length, body width, body area, body pe­rimeter and the distance between ventral sucker and posterior end of body were obtained using Auto­CAD image analysis software. Total gDNA was extracted from individual flukes by modified phenol-chloroform method. PCR amplification of ITS2 fragment was performed the isolated DNA samples and the amplicons were consequently subjected to RFLP assay and nucleotide sequencing to distinguish be­tween fasciolid species. "nResults: Mean of morphometric values in flukes from sheep was greater than those of cattle. Accordingly, the identified species included 31% F. hepatica-like, 7% F. gigantica-like and 62% intermediate forms. How­ever, ITS2 fragment of 535 amplified specimens, showed no variation at the species-specific nucleo­tide sites 230, 340 and 341. The amplified fragment composed of partial 5.8S sequence (62bp, the com­plete ITS2 sequence (361bp and partial 28S sequence (34bp. The nucleotide contents of ITS2 region were 69 A, 116 T, 81 C and 95 G and the average G+C content was approximately 49%. Comparing of ITS2 sequences with the BLAST GenBank database, also confirmed that all specimens were F. hepatica. "nConclusion: A simple and rapid PCR-RFLP assay can be used for distinguishing between these species.

  12. GBM heterogeneity characterization by radiomic analysis of phenotype anatomical planes

    Science.gov (United States)

    Chaddad, Ahmad; Desrosiers, Christian; Toews, Matthew

    2016-03-01

    Glioblastoma multiforme (GBM) is the most common malignant primary tumor of the central nervous system, characterized among other traits by rapid metastatis. Three tissue phenotypes closely associated with GBMs, namely, necrosis (N), contrast enhancement (CE), and edema/invasion (E), exhibit characteristic patterns of texture heterogeneity in magnetic resonance images (MRI). In this study, we propose a novel model to characterize GBM tissue phenotypes using gray level co-occurrence matrices (GLCM) in three anatomical planes. The GLCM encodes local image patches in terms of informative, orientation-invariant texture descriptors, which are used here to sub-classify GBM tissue phenotypes. Experiments demonstrate the model on MRI data of 41 GBM patients, obtained from the cancer genome atlas (TCGA). Intensity-based automatic image registration is applied to align corresponding pairs of fixed T1˗weighted (T1˗WI) post-contrast and fluid attenuated inversion recovery (FLAIR) images. GBM tissue regions are then segmented using the 3D Slicer tool. Texture features are computed from 12 quantifier functions operating on GLCM descriptors, that are generated from MRI intensities within segmented GBM tissue regions. Various classifier models are used to evaluate the effectiveness of texture features for discriminating between GBM phenotypes. Results based on T1-WI scans showed a phenotype classification accuracy of over 88.14%, a sensitivity of 85.37% and a specificity of 96.1%, using the linear discriminant analysis (LDA) classifier. This model has the potential to provide important characteristics of tumors, which can be used for the sub-classification of GBM phenotypes.

  13. Genetic association analysis of complex diseases incorporating intermediate phenotype information.

    Directory of Open Access Journals (Sweden)

    Yafang Li

    Full Text Available Genetic researchers often collect disease related quantitative traits in addition to disease status because they are interested in understanding the pathophysiology of disease processes. In genome-wide association (GWA studies, these quantitative phenotypes may be relevant to disease development and serve as intermediate phenotypes or they could be behavioral or other risk factors that predict disease risk. Statistical tests combining both disease status and quantitative risk factors should be more powerful than case-control studies, as the former incorporates more information about the disease. In this paper, we proposed a modified inverse-variance weighted meta-analysis method to combine disease status and quantitative intermediate phenotype information. The simulation results showed that when an intermediate phenotype was available, the inverse-variance weighted method had more power than did a case-control study of complex diseases, especially in identifying susceptibility loci having minor effects. We further applied this modified meta-analysis to a study of imputed lung cancer genotypes with smoking data in 1154 cases and 1137 matched controls. The most significant SNPs came from the CHRNA3-CHRNA5-CHRNB4 region on chromosome 15q24-25.1, which has been replicated in many other studies. Our results confirm that this CHRNA region is associated with both lung cancer development and smoking behavior. We also detected three significant SNPs--rs1800469, rs1982072, and rs2241714--in the promoter region of the TGFB1 gene on chromosome 19 (p = 1.46×10(-5, 1.18×10(-5, and 6.57×10(-6, respectively. The SNP rs1800469 is reported to be associated with chronic obstructive pulmonary disease and lung cancer in cigarette smokers. The present study is the first GWA study to replicate this result. Signals in the 3q26 region were also identified in the meta-analysis. We demonstrate the intermediate phenotype can potentially enhance the power of complex

  14. Anchor Dragging Analysis of Rock-Berm Using Smoothed Particle Hydrodynamics Method

    Directory of Open Access Journals (Sweden)

    Jinho Woo

    2015-01-01

    Full Text Available This study presents dynamic responses of rock-berm structural system under anchor dragging and accordingly provides the characteristics of the stresses and displacements obtained. For the purpose, first, a rock-berm was modeled by the SPH (smoothed particle hydrodynamics method and piecewise Drucker-Prager material model by facilitating the associated software package—ANSYS-AUTODYN. Second, 2-ton stockless anchor was modeled as a rigid body and eventually dragging external force was obtained. Then, the dragging velocity (1 and 2 m/s was considered as a parameter to investigate the effect of its variation on the responses. Finally, the dragging tensile forces of the anchor cable were obtained and compared according to the dragging velocities. It is shown that the four-layer rock-berm gives the safety margin to the submarine power cable according to the unaffected gauge points near the cable. This safety is accomplished by the four layers (related to rock-berm height and the number of rock particles at each layer (related to rock-berm widths.

  15. Mechanical behavior analysis of a submerged fixed point anchoring system for a hydroacoustic signature measuring sensor for divers and ships

    Science.gov (United States)

    Slamnoiu, G.; Radu, O.; Surdu, G.; Roşca, V.; Damian, R.; Pascu, C.; Curcă, E.; Rădulescu, A.

    2016-08-01

    The paper has as its main objectives the presentation and the analysis of the numerical analysis results for the study of a fixed point anchoring system for a hydroacoustic sensor when measuring the hydroacoustic signature of divers and ships in real sea conditions. The study of the mechanical behavior of this system has as main objectives the optimization of the shape and weight of the anchorage ballast for the metallic structure while considering the necessity to maintain the sensor in a fixed point and the analysis of the sensor movements and the influences on the measurements caused by the sea current streams. The study was focused on the 3D model of metallic structure design; numerical modeling of the water flow around the sensor anchoring structure using volume of fluid analysis and the analysis of the forces and displacements using FEM when needed for the study. In this paper we have used data for the sea motion dynamics and in particular the velocity of the sea current streams as determined by experimental measurements that have been conducted for the western area of the Black Sea.

  16. Comprehensive behavioral analysis of voltage-gated calcium channel beta-anchoring and -regulatory protein knockout mice

    Directory of Open Access Journals (Sweden)

    Akito eNakao

    2015-06-01

    Full Text Available Calcium (Ca2+ influx through voltage-gated Ca2+ channels (VGCCs induces numerous intracellular events such as neuronal excitability, neurotransmitter release, synaptic plasticity, and gene regulation. It has been shown that genes related to Ca2+ signaling, such as the CACNA1C, CACNB2, and CACNA1I genes that encode VGCC subunits, are associated with schizophrenia and other psychiatric disorders. Recently, VGCC beta-anchoring and -regulatory protein (BARP was identified as a novel regulator of VGCC activity via the interaction of VGCC β subunits. To examine the role of the BARP in higher brain functions, we generated BARP knockout (KO mice and conducted a comprehensive battery of behavioral tests. BARP KO mice exhibited greatly reduced locomotor activity, as evidenced by decreased vertical activity, stereotypic counts in the open field test, and activity level in the home cage, and longer latency to complete a session in spontaneous T-maze alteration test, which reached study-wide significance. Acoustic startle response was also reduced in the mutants. Interestingly, they showed multiple behavioral phenotypes that are seemingly opposite to those seen in the mouse models of schizophrenia and its related disorders, including increased working memory, flexibility, prepulse inhibition, and social interaction, and decreased locomotor activity, though many of these phenotypes are statistically weak and require further replications. These results demonstrate that BARP is involved in the regulation of locomotor activity and, possibly, emotionality. The possibility was also suggested that BARP KO mice may serve as a unique tool for investigating the pathogenesis/pathophysiology of schizophrenia and related disorders. Further evaluation of the molecular and physiological phenotypes of the mutant mice would provide new insights into the role of BARP in higher brain functions.

  17. New structural systems for zero-maintenance pavements. Volume 2: Analysis of anchored pavements using ANSYS

    Science.gov (United States)

    Saxena, S. K.; Militsopoulos, S. G.

    1980-08-01

    A set of procedures to evaluate the response of an anchored pavement subjected to vehicle static loads, moisture variation in the subgrade, and/or temperature variation through the surface of the pavement is presented. These procedures include two computer programs known as FEMESH and ANSYS. The FEMESH program generates rectangular meshes in either a two or three dimensional coordinate system for any prespecified number and spacing of nodes. The ANSYS program evaluates the stresses, strains, and the deflections at all elements in each material included in the analytical model.

  18. Computational fluid dynamic analysis of flutter characteristics for self-anchored suspension bridges

    Institute of Scientific and Technical Information of China (English)

    Zhiwen ZHU; Zhaoxiang WANG; Zhengqing CHEN

    2008-01-01

    This paper outlines the essentials and proce-dures of computational fluid dynamics (CFD) simulation applicable to evaluating flutter derivatives of bridge decks. An arbitrary Lagrangian-Eulerian (ALE) description of the flow around the moving rigid box girder combined with the finite volume discretization and multi-grid algorithm is pre-sented. The proposed methods are employed to identify flutter derivatives of the bridge deck of the Sanchaji Self-anchored Suspension Bridge. The results agree well with ones from wind tunnel tests. It demonstrates accuracy and efficiency of the present method.

  19. Back analysis based on slope anchor load monitoring data%基于边坡锚固荷载监测数据的反分析

    Institute of Scientific and Technical Information of China (English)

    赵明阶; 谢鑫; 汪魁

    2011-01-01

    对于施加锚固作用的边坡处治工程,其监测数据主要是以锚固荷载为主,通常的位移监测只是针对边坡表面结构,不能客观反映边坡内部岩土体的力学效应.故基于锚固荷载监测数据的反分析方法将成为位移反分析方法的有益补充.通过分析预应力锚杆的力学效应,将锚固荷载转化为锚杆轴力,利用ANSYS参数化设计语言(APDL)对边坡锚固荷载进行优化反分析.根据反演获得的岩土体力学参数可用于边坡稳定性分析.实例计算结果表明,基于锚固监测数据建立反分析的途径是可行的.%For the slope with the anchor, the anchor load is the main monitoring data, and usually displacement monitoring is only for the slope surface structure, which can not objectively reflect mechanical effects of rock and soil in the slope. Therefore, the back analysis method based on anchor load monitoring data will become a useful supplement against the displacement back analysis method. In this paper, by analyzing the mechanical effect of prestressed anchor and by expressing the anchor load as the axial force, the optimum back analysis of slope anchor load is carried out using ANSYS parametric design language (APDL). By back analysis, we have obtained the parameters of rock and soil slope that can be used for slope stability analysis.

  20. Stress Analysis of Building Curtain Wall Post Embedment Anchor Bolt%建筑幕墙后置埋件锚栓受力分析

    Institute of Scientific and Technical Information of China (English)

    陆新鑫; 吴强

    2014-01-01

    本文根据JGJ 145—2013《混凝土结构后锚固技术规程》第5.2.2条,对后置埋件在双向受弯矩、双向受剪力、以及扭矩、拉力的共同作用下进行的锚栓受力做了分析,提出了复合力作用下后置埋件锚栓的计算公式。%This paper, according to article 5.2.2 of JGJ 145 -2013 “technical specification for concrete structure of anch-oring force”, made an analysis of the force analysis of post anchor bolt under the interaction of bi-directional torque, shear force, bending, put ing forward the calculation formula of posts anchor bolt under composite force.

  1. Inconspicuous anchoring effects generated by false information

    Institute of Scientific and Technical Information of China (English)

    Chen Qu; Jun Wang; Yuejia Luo

    2008-01-01

    The impact of false information on numerical judgments was examined on young normal subjects by an event-related potential (ERP) experiment. To imitate the judgments in real world, we ensured the subjects acknowledged of the target task. The behavioral results found that both uncertain information and false information assimilated the final estimates: higher after higher anchors and lower after lower anchors; and false information caused a weaker anchoring bias than uncertain information. ERP results provided further electrophysiological evidence for the mechanism of anchoring. In the early phrase, it was an accessibility-dominated process in which two kinds of anchors elicited an N300 component related to the accessibility of anchors propositions. The knowledge relevant to targets joined the process in the late phrase, which caused a larger amplitude of late positive component (LPC) for implausible lower anchors than that for plausible higher anchors. Source analysis showed that medial frontal gyrus, whose activity was suggested to signal the need of adjustment, was more reliable to explain the LPC elicited by implausible lower anchors. Therefore, we suggest that accessibility is facilitated when the external anchor is consistent with the world knowledge, and adjustment is initiated when the external anchor is inconsistent.

  2. Analysis of Spatial Load on Anchor Beam for Single Pylon Self-anchored Suspension Bridge%独柱塔自锚式悬索桥锚固横梁结构空间受力分析

    Institute of Scientific and Technical Information of China (English)

    李建慧; 李爱群; 李喜平; 袁辉辉

    2009-01-01

    Jiangxinzhou Bridge in Nanjing is a single-pylon spatial cable self-anchored suspension bridge, whose side span main cable anchorage beam design is unique and structural loading is complex.In order to get its partial stress value and distribution as well as its force transfer path, prestressing tendons and main cable was simulated by spatial cable element, concrete anchor beam was simulated by 3D block element, and a 3D refinement finite element model was established with secondary development technology based on the platform of general finite element program.On this basis, reasonable load pattern was used to its spatial structural analysis, by which its force transfer path and stress distribution under free cable construction stage and finished stage were obtained.The results show that (1) stress value and distribution change greatly between the two stages; (2) prestressing tendons of anchor beam should be tensioned by stages according to change of main cable internal force to ensure the mechanical state of anchor beam in a reasonable range in the construction process.%南京江心洲大桥边跨主缆锚固大横梁设计独特,结构受力非常复杂.为了获得锚固横梁局部应力的大小与分布规律,对其传力途径进行研究,以通用有限元程序为计算平台,采用空间索单元模拟横梁中配置的预应力束以及主缆束股,三维块体元模拟混凝土锚固横梁,应用二次开发技术,建立精细三维有限元模型.在此基础上采用合理的加载模式对锚固横梁在空缆阶段和成桥状态2种不同工况进行应力计算与分析.结果表明:在空缆与成桥2种状态下锚目横梁的应力值与分布规律变化较大;为保证锚固横梁在施工过程中的受力状态处在合理的范围之内,锚固横梁中配置的大量预应力束应配合主缆束股的内力变化而分批次张拉.

  3. 法向承力锚拖曳安装过程的整体模拟%Quasi-static analysis on the installation of vertically loaded plate anchor

    Institute of Scientific and Technical Information of China (English)

    王立忠; 斯丽莎; 国振; 李玲玲; 袁峰

    2012-01-01

    法向承力锚(Vertically Loaded Plate Anchor,VLA)是一种适用于深水的新型系泊基础,它的拖曳安装过程直接决定了其系泊定位的精度和锚体的最终承载能力.综合考虑VLA锚体、锚泊线和上部船体的运动,建立了一种新的准静力整体分析模型.模型包括不断贯入海床的锚体、锚泊线(土中反悬链段和水中悬链段)和安装船体三部分,针对确定的锚泊线长度,安装船运动张紧锚泊线进行安装的过程,计算了此过程中锚体的运动轨迹、锚泊线形态和作用在船体上的锚泊线张力矢量的变化,重点分析了不同抛链长度和海床土体的参数对安装过程控制的影响,发现链长与水深之比达到5时,接近极限贯入深度.%Vertically loaded plate anchor is a new type of mooring foundations widely used in deepwater anchoring. Its installation process directly determines the mooring positioning precision and the anchor ultimate bearing capacity. A new quasi-static analysis model is presented considering three segments, the anchor, the mooring line (including the line embedded in soil and suspended in water) and the installation vessel. Given chain length, the anchor trajectory and the profile and tension distribution of mooring line are computed when the anchor is dragged. Effects of soil parameters and different mooring line lengths are studied. The results show that when the mooring length is 5 times the water depth, the drag depth of anchor approaches ultimate penetration depth.

  4. Systematic analysis of experimental phenotype data reveals gene functions.

    Directory of Open Access Journals (Sweden)

    Robert Hoehndorf

    Full Text Available High-throughput phenotyping projects in model organisms have the potential to improve our understanding of gene functions and their role in living organisms. We have developed a computational, knowledge-based approach to automatically infer gene functions from phenotypic manifestations and applied this approach to yeast (Saccharomyces cerevisiae, nematode worm (Caenorhabditis elegans, zebrafish (Danio rerio, fruitfly (Drosophila melanogaster and mouse (Mus musculus phenotypes. Our approach is based on the assumption that, if a mutation in a gene [Formula: see text] leads to a phenotypic abnormality in a process [Formula: see text], then [Formula: see text] must have been involved in [Formula: see text], either directly or indirectly. We systematically analyze recorded phenotypes in animal models using the formal definitions created for phenotype ontologies. We evaluate the validity of the inferred functions manually and by demonstrating a significant improvement in predicting genetic interactions and protein-protein interactions based on functional similarity. Our knowledge-based approach is generally applicable to phenotypes recorded in model organism databases, including phenotypes from large-scale, high throughput community projects whose primary mode of dissemination is direct publication on-line rather than in the literature.

  5. Surgical repair of central slip avulsion injuries with Mitek bone anchor--retrospective analysis of a case series.

    LENUS (Irish Health Repository)

    Chan, Jeffrey C Y

    2007-01-01

    The purpose of this study is to describe our technique of central slip repair using the Mitek bone anchor and to evaluate the treatment outcome. Eight digits in eight patients were reconstructed using the bone anchor: three little fingers, two middle fingers, two index fingers and one ring finger. There were two immediate and six delayed repairs (range from one day to eight months). Four patients had pre-operative intensive splinting and physiotherapy to restore passive extension of the proximal interphalangeal joint prior to central slip reconstruction. All patients have made good progress since surgery. No patient requires a second procedure and none of the bone anchors have dislodged or loosened. We conclude that the Mitek bone anchor is a reliable technique to achieve soft tissue to bone fixation in central slip avulsion injuries. We recommend that this technique be considered as a treatment option for patients requiring surgical repair.

  6. A multifaceted analysis of HIV-1 protease multidrug resistance phenotypes

    Directory of Open Access Journals (Sweden)

    Doherty Kathleen M

    2011-12-01

    Full Text Available Abstract Background Great strides have been made in the effective treatment of HIV-1 with the development of second-generation protease inhibitors (PIs that are effective against historically multi-PI-resistant HIV-1 variants. Nevertheless, mutation patterns that confer decreasing susceptibility to available PIs continue to arise within the population. Understanding the phenotypic and genotypic patterns responsible for multi-PI resistance is necessary for developing PIs that are active against clinically-relevant PI-resistant HIV-1 variants. Results In this work, we use globally optimal integer programming-based clustering techniques to elucidate multi-PI phenotypic resistance patterns using a data set of 398 HIV-1 protease sequences that have each been phenotyped for susceptibility toward the nine clinically-approved HIV-1 PIs. We validate the information content of the clusters by evaluating their ability to predict the level of decreased susceptibility to each of the available PIs using a cross validation procedure. We demonstrate the finding that as a result of phenotypic cross resistance, the considered clinical HIV-1 protease isolates are confined to ~6% or less of the clinically-relevant phenotypic space. Clustering and feature selection methods are used to find representative sequences and mutations for major resistance phenotypes to elucidate their genotypic signatures. We show that phenotypic similarity does not imply genotypic similarity, that different PI-resistance mutation patterns can give rise to HIV-1 isolates with similar phenotypic profiles. Conclusion Rather than characterizing HIV-1 susceptibility toward each PI individually, our study offers a unique perspective on the phenomenon of PI class resistance by uncovering major multidrug-resistant phenotypic patterns and their often diverse genotypic determinants, providing a methodology that can be applied to understand clinically-relevant phenotypic patterns to aid in the

  7. Analysis on Optimum Anchorage Angle of Anchoring Bars (Ropes)%锚杆(索)最佳锚固角的取值分析

    Institute of Scientific and Technical Information of China (English)

    蒋明杰

    2013-01-01

      In the protection design of highway slope engineering , the anchorage design of anchoring bars (ropes) are more commonly protection method, while the anchorage angle in the design of anchoring bars (ropes) is a key parameter, which related to the stability and economy in whole anchoring slope engi-neering.Through the influences of anchorage angle on anchored slope engineering safety and economy , the comprehensive analysis is carried out,and the expression formula of optimum anchorage angle is deter-mined, finally through the engineering examples ,it verifies the practicality of optimum anchorage angle .%  在公路边坡工程的防护设计中,锚杆(索)的锚固设计是较常用的防护形式,而在锚杆(索)的设计中锚固角是很关键的一个参数,关系到整个锚固边坡工程的稳定性和经济性。该文通过综合分析锚杆(索)的锚固角对锚固边坡工程的安全性和经济性两方面的影响,确定了锚杆(索)最佳锚固角的表达式,并通过工程实例验证了最佳锚固角的实用性。

  8. Analysis on anchoring plate retaining wall of Shanxi Science and Technology Museum%山西省科技馆锚定板挡土墙分析

    Institute of Scientific and Technical Information of China (English)

    张波

    2015-01-01

    介绍了锚定板式挡土墙的受力原理及适用条件,结合工程实例,从参数设计、土压力计算、锚定板抗拔力计算、稳定性分析等方面,阐述了锚定板挡土墙的具体设计方法,指出锚定板挡土墙具有施工速度快、造价低等优势。%This paper introduced the force principle and applicable conditions of anchoring plate retaining wall,combining with the engineering examples,from the parameter design,soil pressure calculation,anchor plate pulling force calculation,stability analysis and other aspects,elabo-rated the specific design method of anchoring plate retaining wall,pointed out that the anchoring plate retaining wall had quick construction speed,low cost and other advantages.

  9. Application of Mass Cytometry (CyTOF) for Functional and Phenotypic Analysis of Natural Killer Cells.

    Science.gov (United States)

    Kay, Alexander W; Strauss-Albee, Dara M; Blish, Catherine A

    2016-01-01

    Mass cytometry is a novel platform for high-dimensional phenotypic and functional analysis of single cells. This system uses elemental metal isotopes conjugated to monoclonal antibodies to evaluate up to 42 parameters simultaneously on individual cells with minimal overlap between channels. The platform can be customized for analysis of both phenotypic and functional markers. Here, we will describe methods to stain, collect, and analyze intracellular functional markers and surface phenotypic markers on natural killer cells. PMID:27177653

  10. A Penalized Mixture Model Approach in Genotype/Phenotype Association Analysis for Quantitative Phenotypes

    Directory of Open Access Journals (Sweden)

    Lang Li

    2010-04-01

    Full Text Available A mixture normal model has been developed to partition genotypes in predicting quantitative phenotypes. Its estimation and inference are performed through an EM algorithm. This approach can conduct simultaneous genotype clustering and hypothesis testing. It is a valuable method for predicting the distribution of quantitative phenotypes among multi-locus genotypes across genes or within a gene. This mixture model’s performance is evaluated in data analyses for two pharmacogenetics studies. In one example, thirty five CYP2D6 genotypes were partitioned into three groups to predict pharmacokinetics of a breast cancer drug, Tamoxifen, a CYP2D6 substrate (p-value = 0.04. In a second example, seventeen CYP2B6 genotypes were categorized into three clusters to predict CYP2B6 protein expression (p-value = 0.002. The biological validities of both partitions are examined using established function of CYP2D6 and CYP2B6 alleles. In both examples, we observed genotypes clustered in the same group to have high functional similarities. The power and recovery rate of the true partition for the mixture model approach are investigated in statistical simulation studies, where it outperforms another published method.

  11. Comparative Metabolomic and Lipidomic Analysis of Phenotype Stratified Prostate Cells.

    Directory of Open Access Journals (Sweden)

    Tanya C Burch

    Full Text Available Prostate cancer (PCa is the most prevalent cancer amongst men and the second most common cause of cancer related-deaths in the USA. Prostate cancer is a heterogeneous disease ranging from indolent asymptomatic cases to very aggressive life threatening forms. The goal of this study was to identify differentially expressed metabolites and lipids in prostate cells with different tumorigenic phenotypes. We have used mass spectrometry metabolomic profiling, lipidomic profiling, bioinformatic and statistical methods to identify, quantify and characterize differentially regulated molecules in five prostate derived cell lines. We have identified potentially interesting species of different lipid subclasses including phosphatidylcholines (PCs, phosphatidylethanolamines (PEs, glycerophosphoinositols (PIs and other metabolites that are significantly upregulated in prostate cancer cells derived from distant metastatic sites. Transcriptomic and biochemical analysis of key enzymes that are involved in lipid metabolism demonstrate the significant upregulation of choline kinase alpha in the metastatic cells compared to the non-malignant and non-metastatic cells. This suggests that different de novo lipogenesis and other specific signal transduction pathways are activated in aggressive metastatic cells as compared to normal and non-metastatic cells.

  12. Application of a stand-alone anchored spacer in noncontiguous anterior cervical arthrodesis with radiologic analysis of the intermediate segment.

    Science.gov (United States)

    Shi, Sheng; Liu, Zu-De; You, Wen-Jie; Ouyang, Yue-Ping; Li, Xin-Feng; Qian, Lie; Zhong, Gui-Bin

    2016-03-01

    The purpose of this study was to describe the clinical features of noncontiguous cervical degenerative disc disease (cDDD), investigate the efficacy and complications of a stand-alone anchored spacer (SAAS) for patients with noncontiguous cDDD, and present radiologic analysis of the intermediate segment (IS) after skip-level fusion. Nineteen consecutive patients with noncontiguous cDDD who underwent skip-level anterior cervical discectomy and fusion (ACDF) with SAAS from January 2010 to December 2012 were enrolled in this study. Clinical outcomes were assessed preoperatively and at 24 months postoperatively using the Japanese Orthopaedic Association score, Neck Disability Index, and Visual Analog Scale. Overall cervical alignment (OCA) of the cervical spine, and the range of motion (ROM), intervertebral disc height (IDH), disc signal intensity and disc protrusion of IS were measured and compared before and after surgery. Clinical outcomes significantly improved compared to preoperative scores. The OCA was corrected and maintained at 24 months postoperatively compared with preoperative values (p0.05). However, decreased signal intensity on T2-weighted MRI was evidenced in three mobile IS at final follow-up (20.0%). Skip-level ACDF with SAAS may be an efficacious option for the treatment of noncontiguous cDDD. PMID:26597607

  13. Genetic Association Analysis of Complex Diseases Incorporating Intermediate Phenotype Information

    OpenAIRE

    Li, Yafang; Huang, Jian; Amos, Christopher I.

    2012-01-01

    Genetic researchers often collect disease related quantitative traits in addition to disease status because they are interested in understanding the pathophysiology of disease processes. In genome-wide association (GWA) studies, these quantitative phenotypes may be relevant to disease development and serve as intermediate phenotypes or they could be behavioral or other risk factors that predict disease risk. Statistical tests combining both disease status and quantitative risk factors should ...

  14. Anchor Selection Strategies for DIF Analysis: Review, Assessment, and New Approaches

    Science.gov (United States)

    Kopf, Julia; Zeileis, Achim; Strobl, Carolin

    2015-01-01

    Differential item functioning (DIF) indicates the violation of the invariance assumption, for instance, in models based on item response theory (IRT). For item-wise DIF analysis using IRT, a common metric for the item parameters of the groups that are to be compared (e.g., for the reference and the focal group) is necessary. In the Rasch model,…

  15. Physical mapping in large genomes: accelerating anchoring of BAC contigs to genetic maps through in silico analysis.

    Science.gov (United States)

    Paux, Etienne; Legeai, Fabrice; Guilhot, Nicolas; Adam-Blondon, Anne-Françoise; Alaux, Michaël; Salse, Jérôme; Sourdille, Pierre; Leroy, Philippe; Feuillet, Catherine

    2008-02-01

    Anchored physical maps represent essential frameworks for map-based cloning, comparative genomics studies, and genome sequencing projects. High throughput anchoring can be achieved by polymerase chain reaction (PCR) screening of bacterial artificial chromosome (BAC) library pools with molecular markers. However, for large genomes such as wheat, the development of high dimension pools and the number of reactions that need to be performed can be extremely large making the screening laborious and costly. To improve the cost efficiency of anchoring in such large genomes, we have developed a new software named Elephant (electronic physical map anchoring tool) that combines BAC contig information generated by FingerPrinted Contig with results of BAC library pools screening to identify BAC addresses with a minimal amount of PCR reactions. Elephant was evaluated during the construction of a physical map of chromosome 3B of hexaploid wheat. Results show that a one dimensional pool screening can be sufficient to anchor a BAC contig while reducing the number of PCR by 384-fold thereby demonstrating that Elephant is an efficient and cost-effective tool to support physical mapping in large genomes. PMID:18038165

  16. Hypersensitivity to Suture Anchors

    Directory of Open Access Journals (Sweden)

    Masafumi Goto

    2013-01-01

    Full Text Available Hypersensitivity to suture anchor is extremely rare. Herein, we present a case in which hypersensitivity to suture anchor was strongly suspected. The right rotator cuff of a 50-year-old woman was repaired with a metal suture anchor. Three weeks after the surgery, she developed erythema around her face, trunk, and hands, accompanied by itching. Infection was unlikely because no abnormalities were detected by blood testing or by medical examination. Suspicious of a metallic allergy, a dermatologist performed a patch testing 6 months after the first surgery. The patient had negative reactions to tests for titanium, aluminum, and vanadium, which were the principal components of the suture anchor. The anchor was removed 7 months after the first surgery, and the erythema disappeared immediately. When allergic symptoms occur and persist after the use of a metal anchor, removal should be considered as a treatment option even if the patch test result is negative.

  17. Experimental analysis of multi-attribute decision-making based on Atanassov intuitionistic fuzzy sets: a discussion of anchor dependency and accuracy functions

    Science.gov (United States)

    Chen, Ting-Yu

    2012-06-01

    This article presents a useful method for relating anchor dependency and accuracy functions to multiple attribute decision-making (MADM) problems in the context of Atanassov intuitionistic fuzzy sets (A-IFSs). Considering anchored judgement with displaced ideals and solution precision with minimal hesitation, several auxiliary optimisation models have proposed to obtain the optimal weights of the attributes and to acquire the corresponding TOPSIS (the technique for order preference by similarity to the ideal solution) index for alternative rankings. Aside from the TOPSIS index, as a decision-maker's personal characteristics and own perception of self may also influence the direction in the axiom of choice, the evaluation of alternatives is conducted based on distances of each alternative from the positive and negative ideal alternatives, respectively. This article originates from Li's [Li, D.-F. (2005), 'Multiattribute Decision Making Models and Methods Using Intuitionistic Fuzzy Sets', Journal of Computer and System Sciences, 70, 73-85] work, which is a seminal study of intuitionistic fuzzy decision analysis using deduced auxiliary programming models, and deems it a benchmark method for comparative studies on anchor dependency and accuracy functions. The feasibility and effectiveness of the proposed methods are illustrated by a numerical example. Finally, a comparative analysis is illustrated with computational experiments on averaging accuracy functions, TOPSIS indices, separation measures from positive and negative ideal alternatives, consistency rates of ranking orders, contradiction rates of the top alternative and average Spearman correlation coefficients.

  18. Structural analysis of the contacts anchoring moenomycin to peptidoglycan glycosyltransferases and implications for antibiotic design

    Energy Technology Data Exchange (ETDEWEB)

    Yuan, Y.; Fuse, S.; Ostash, B.; Sliz, P.; Kahne, D.; Walker, S. (Harvard-Med); (Harvard)

    2008-08-20

    Peptidoglycan glycosyltransferases (PGTs), enzymes that catalyze the formation of the glycan chains of the bacterial cell wall, have tremendous potential as antibiotic targets. The moenomycins, a potent family of natural product antibiotics, are the only known active site inhibitors of the PGTs and serve as blueprints for the structure-based design of new antibacterials. A 2.8 {angstrom} structure of a Staphylococcus aureus PGT with moenomycin A bound in the active site appeared recently, potentially providing insight into substrate binding; however, the protein-ligand contacts were not analyzed in detail and the implications of the structure for inhibitor design were not addressed. We report here the 2.3 {angstrom} structure of a complex of neryl-moenomycin A bound to the PGT domain of Aquifex aeolicus PBP1A. The structure allows us to examine protein-ligand contacts in detail and implies that six conserved active site residues contact the centrally located F-ring phosphoglycerate portion of neryl-moenomycin A. A mutational analysis shows that all six residues play important roles in enzymatic activity. We suggest that small scaffolds that maintain these key contacts will serve as effective PGT inhibitors. To test this hypothesis, we have prepared, via heterologous expression of a subset of moenomycin biosynthetic genes, a novel moenomycin intermediate that maintains these six contacts but does not contain the putative minimal pharmacophore. This compound has comparable biological activity to the previously proposed minimal pharmacophore. The results reported here may facilitate the design of antibiotics targeted against peptidoglycan glycosyltransferases.

  19. Analysis of mammalian gene function through broad based phenotypic screens across a consortium of mouse clinics

    Science.gov (United States)

    Adams, David J; Adams, Niels C; Adler, Thure; Aguilar-Pimentel, Antonio; Ali-Hadji, Dalila; Amann, Gregory; André, Philippe; Atkins, Sarah; Auburtin, Aurelie; Ayadi, Abdel; Becker, Julien; Becker, Lore; Bedu, Elodie; Bekeredjian, Raffi; Birling, Marie-Christine; Blake, Andrew; Bottomley, Joanna; Bowl, Mike; Brault, Véronique; Busch, Dirk H; Bussell, James N; Calzada-Wack, Julia; Cater, Heather; Champy, Marie-France; Charles, Philippe; Chevalier, Claire; Chiani, Francesco; Codner, Gemma F; Combe, Roy; Cox, Roger; Dalloneau, Emilie; Dierich, André; Di Fenza, Armida; Doe, Brendan; Duchon, Arnaud; Eickelberg, Oliver; Esapa, Chris T; El Fertak, Lahcen; Feigel, Tanja; Emelyanova, Irina; Estabel, Jeanne; Favor, Jack; Flenniken, Ann; Gambadoro, Alessia; Garrett, Lilian; Gates, Hilary; Gerdin, Anna-Karin; Gkoutos, George; Greenaway, Simon; Glasl, Lisa; Goetz, Patrice; Da Cruz, Isabelle Goncalves; Götz, Alexander; Graw, Jochen; Guimond, Alain; Hans, Wolfgang; Hicks, Geoff; Hölter, Sabine M; Höfler, Heinz; Hancock, John M; Hoehndorf, Robert; Hough, Tertius; Houghton, Richard; Hurt, Anja; Ivandic, Boris; Jacobs, Hughes; Jacquot, Sylvie; Jones, Nora; Karp, Natasha A; Katus, Hugo A; Kitchen, Sharon; Klein-Rodewald, Tanja; Klingenspor, Martin; Klopstock, Thomas; Lalanne, Valerie; Leblanc, Sophie; Lengger, Christoph; le Marchand, Elise; Ludwig, Tonia; Lux, Aline; McKerlie, Colin; Maier, Holger; Mandel, Jean-Louis; Marschall, Susan; Mark, Manuel; Melvin, David G; Meziane, Hamid; Micklich, Kateryna; Mittelhauser, Christophe; Monassier, Laurent; Moulaert, David; Muller, Stéphanie; Naton, Beatrix; Neff, Frauke; Nolan, Patrick M; Nutter, Lauryl MJ; Ollert, Markus; Pavlovic, Guillaume; Pellegata, Natalia S; Peter, Emilie; Petit-Demoulière, Benoit; Pickard, Amanda; Podrini, Christine; Potter, Paul; Pouilly, Laurent; Puk, Oliver; Richardson, David; Rousseau, Stephane; Quintanilla-Fend, Leticia; Quwailid, Mohamed M; Racz, Ildiko; Rathkolb, Birgit; Riet, Fabrice; Rossant, Janet; Roux, Michel; Rozman, Jan; Ryder, Ed; Salisbury, Jennifer; Santos, Luis; Schäble, Karl-Heinz; Schiller, Evelyn; Schrewe, Anja; Schulz, Holger; Steinkamp, Ralf; Simon, Michelle; Stewart, Michelle; Stöger, Claudia; Stöger, Tobias; Sun, Minxuan; Sunter, David; Teboul, Lydia; Tilly, Isabelle; Tocchini-Valentini, Glauco P; Tost, Monica; Treise, Irina; Vasseur, Laurent; Velot, Emilie; Vogt-Weisenhorn, Daniela; Wagner, Christelle; Walling, Alison; Weber, Bruno; Wendling, Olivia; Westerberg, Henrik; Willershäuser, Monja; Wolf, Eckhard; Wolter, Anne; Wood, Joe; Wurst, Wolfgang; Yildirim, Ali Önder; Zeh, Ramona; Zimmer, Andreas; Zimprich, Annemarie

    2015-01-01

    The function of the majority of genes in the mouse and human genomes remains unknown. The mouse ES cell knockout resource provides a basis for characterisation of relationships between gene and phenotype. The EUMODIC consortium developed and validated robust methodologies for broad-based phenotyping of knockouts through a pipeline comprising 20 disease-orientated platforms. We developed novel statistical methods for pipeline design and data analysis aimed at detecting reproducible phenotypes with high power. We acquired phenotype data from 449 mutant alleles, representing 320 unique genes, of which half had no prior functional annotation. We captured data from over 27,000 mice finding that 83% of the mutant lines are phenodeviant, with 65% demonstrating pleiotropy. Surprisingly, we found significant differences in phenotype annotation according to zygosity. Novel phenotypes were uncovered for many genes with unknown function providing a powerful basis for hypothesis generation and further investigation in diverse systems. PMID:26214591

  20. Impact of temporal variation on design and analysis of mouse knockout phenotyping studies.

    Directory of Open Access Journals (Sweden)

    Natasha A Karp

    Full Text Available A significant challenge facing high-throughput phenotyping of in-vivo knockout mice is ensuring phenotype calls are robust and reliable. Central to this problem is selecting an appropriate statistical analysis that models both the experimental design (the workflow and the way control mice are selected for comparison with knockout animals and the sources of variation. Recently we proposed a mixed model suitable for small batch-oriented studies, where controls are not phenotyped concurrently with mutants. Here we evaluate this method both for its sensitivity to detect phenotypic effects and to control false positives, across a range of workflows used at mouse phenotyping centers. We found the sensitivity and control of false positives depend on the workflow. We show that the phenotypes in control mice fluctuate unexpectedly between batches and this can cause the false positive rate of phenotype calls to be inflated when only a small number of batches are tested, when the effect of knockout becomes confounded with temporal fluctuations in control mice. This effect was observed in both behavioural and physiological assays. Based on this analysis, we recommend two approaches (workflow and accompanying control strategy and associated analyses, which would be robust, for use in high-throughput phenotyping pipelines. Our results show the importance in modelling all sources of variability in high-throughput phenotyping studies.

  1. The Analysis and Research of Anchor Movement along a Fixed Orbit at the Bottom of Anchor Pocket:Anti-locked Anchor Pocket%锚体在锚穴底部固定轨道上运行的分析与研究

    Institute of Scientific and Technical Information of China (English)

    廉国利

    2015-01-01

    锚穴的主要功能是把锚体储藏在船体的外板内部。其目的主要有防止锚体与其他物体(码头、船坞、等)碰撞,航行时能减少水浪对锚体本身的冲击,减轻风阻,减小对航速的负面影响等。最终能有效的把锚体沿设计的轨迹进入锚穴,并且顺利的与锚穴底板完全贴合,完成整个拉锚过程。由于一些锚穴在现代船舶建造中,受船体型线的制约,满足不了起锚任务。从而开展了从锚穴本身来改变锚体的运行轨迹的研究,利用锚穴底部的固定轨道将锚体顺利进入锚穴,最终完成起锚任务。%The main function of anchor pocket is to store the anchor inside the hull plate.There are many design purposes of the anchor pocket.It can prevent the anchor from colliding with other objects such as quay,dock and so on.The anchor pocket can reduce the colliding of waves and surge with the anchor while sailing,and the wind resistance so as to decrease the negative effect on ship speed.The anchor is able to be effectively put into the anchor pocket along the designed trajectory,and completely fit with the bottom of anchor pocket,then the whole process of drawing anchor is completed.In modern shipbuilding,some anchor pockets cannot satisfy drawing anchor test due to ship molded lines.In the study, anchor pocket itself was analyzed to change the running track of the anchor body.With the fixed orbit at the bottom of an-chor pocket,the anchor finally entered anchor pocket smoothly,successfully fulfilling the drawing anchor test.

  2. Monogenean anchor morphometry: systematic value, phylogenetic signal, and evolution.

    Science.gov (United States)

    Khang, Tsung Fei; Soo, Oi Yoon Michelle; Tan, Wooi Boon; Lim, Lee Hong Susan

    2016-01-01

    Background. Anchors are one of the important attachment appendages for monogenean parasites. Common descent and evolutionary processes have left their mark on anchor morphometry, in the form of patterns of shape and size variation useful for systematic and evolutionary studies. When combined with morphological and molecular data, analysis of anchor morphometry can potentially answer a wide range of biological questions. Materials and Methods. We used data from anchor morphometry, body size and morphology of 13 Ligophorus (Monogenea: Ancyrocephalidae) species infecting two marine mugilid (Teleostei: Mugilidae) fish hosts: Moolgarda buchanani (Bleeker) and Liza subviridis (Valenciennes) from Malaysia. Anchor shape and size data (n = 530) were generated using methods of geometric morphometrics. We used 28S rRNA, 18S rRNA, and ITS1 sequence data to infer a maximum likelihood phylogeny. We discriminated species using principal component and cluster analysis of shape data. Adams's K mult was used to detect phylogenetic signal in anchor shape. Phylogeny-correlated size and shape changes were investigated using continuous character mapping and directional statistics, respectively. We assessed morphological constraints in anchor morphometry using phylogenetic regression of anchor shape against body size and anchor size. Anchor morphological integration was studied using partial least squares method. The association between copulatory organ morphology and anchor shape and size in phylomorphospace was used to test the Rohde-Hobbs hypothesis. We created monogeneaGM, a new R package that integrates analyses of monogenean anchor geometric morphometric data with morphological and phylogenetic data. Results. We discriminated 12 of the 13 Ligophorus species using anchor shape data. Significant phylogenetic signal was detected in anchor shape. Thus, we discovered new morphological characters based on anchor shaft shape, the length between the inner root point and the outer root

  3. Design and Vibration Sensitivity Analysis of a MEMS Tuning Fork Gyroscope with an Anchored Diamond Coupling Mechanism.

    Science.gov (United States)

    Guan, Yanwei; Gao, Shiqiao; Liu, Haipeng; Jin, Lei; Niu, Shaohua

    2016-01-01

    In this paper, a new micromachined tuning fork gyroscope (TFG) with an anchored diamond coupling mechanism is proposed while the mode ordering and the vibration sensitivity are also investigated. The sense-mode of the proposed TFG was optimized through use of an anchored diamond coupling spring, which enables the in-phase mode frequency to be 108.3% higher than the anti-phase one. The frequencies of the in- and anti-phase modes in the sense direction are 9799.6 Hz and 4705.3 Hz, respectively. The analytical solutions illustrate that the stiffness difference ratio of the in- and anti-phase modes is inversely proportional to the output induced by the vibration from the sense direction. Additionally, FEM simulations demonstrate that the stiffness difference ratio of the anchored diamond coupling TFG is 16.08 times larger than the direct coupling one while the vibration output is reduced by 94.1%. Consequently, the proposed new anchored diamond coupling TFG can structurally increase the stiffness difference ratio to improve the mode ordering and considerably reduce the vibration sensitivity without sacrificing the scale factor.

  4. Susceptibility to anchoring effects

    Directory of Open Access Journals (Sweden)

    Todd McElroy

    2007-02-01

    Full Text Available Previous research on anchoring has shown this heuristic to be a very robust psychological phenomenon ubiquitous across many domains of human judgment and decision-making. Despite the prevalence of anchoring effects, researchers have only recently begun to investigate the underlying factors responsible for how and in what ways a person is susceptible to them. This paper examines how one such factor, the Big-Five personality trait of openness-to-experience, influences the effect of previously presented anchors on participants' judgments. Our findings indicate that participants high in openness-to-experience were significantly more influenced by anchoring cues relative to participants low in this trait. These findings were consistent across two different types of anchoring tasks providing convergent evidence for our hypothesis.

  5. FUNCTIONAL ANALYSIS AND GENOTYPE-PHENOTYPE CORRELATIONS IN WILSON DISEASE

    Directory of Open Access Journals (Sweden)

    Elena Scvortova

    2013-10-01

    Full Text Available Abstract: Knowledge of how mutations other than p.H1069Q translate into the basic defect in Wilson disease (WD is scarce due to the low incidence of homozygous index cases. A total of 12 homozygous mutations of ATP7B, were examined for their functional activity. Transfected Chinese hamster ovary cells (CHO-K1 exposed to elevated copper levels was used as a model for predicting the severity of different WD mutations. The results of this research have direct implications for WD diagnosis. Our data strongly confirms that phenotypic presentation of the patients is related to the ATP7B mutation, providing evidence for genotype - phenotype correlations and can explain in part the variable clinical features observed in patients with WD. The results we have provided help to highlight the information still needed for understanding the function and malfunction of ATP7B and its role in the disease.

  6. Analysis of constituents for phenotyping drought tolerance in crop improvement

    Directory of Open Access Journals (Sweden)

    Tim L Setter

    2012-06-01

    Full Text Available Investigators now have a wide range of analytical tools to use in measuring metabolites, proteins and transcripts in plant tissues. These tools have the potential to assist genetic studies that seek to phenotype genetic lines for heritable traits that contribute to drought tolerance. To be useful for crop breeding, hundreds or thousands of genetic lines must be assessed. This review considers the utility of assaying certain constituents with roles in drought tolerance for phenotyping genotypes. Abscisic acid (ABA, organic and inorganic osmolytes, compatible solutes, and LEA proteins, are considered. Confounding effects that require appropriate tissue and timing specificity, and the need for high throughput and analytical cost efficiency are discussed. With future advances in analytical methods and the value of analyzing constituents that provide information on the underlying mechanisms of drought tolerance, these approaches are expected to contribute to development crops with improved drought tolerance.

  7. Exhaled breath analysis discriminates phenotypes of acute lung injury (ALI)

    OpenAIRE

    Bos, L.D.J.; Hemmes, S.N.T.; Nijsen, T.M.E.; P. J. Sterk; Schultz, M.J

    2012-01-01

    Introduction It has been postulated that the pathophysiology and clinical presentation of ALI based on pulmonary and non-pulmonary etiology represent different phenotypes1. Until now, little biological evidence on the molecular level has been presented to support this hypothesis. Exhaled air contains volatile organic compounds (VOCs), metabolites of systemic or respiratory origin. Exhaled air metabolites may differ between diseases2. Molecular profiling of exhaled air of intubated and mechani...

  8. Theoretical analysis and experimental study on Anchoring Characters of double-anchored self-screwing bolt%双锚固自旋锚杆抗拔力理论分析与试验研究

    Institute of Scientific and Technical Information of China (English)

    邢龙龙

    2015-01-01

    This paper put forward a convenient calculation formula of nude anchor capacity. A simpliifed model was used to calculate the anchor force of the double-anchored self-screwing bolt. The initial anchor-hold of double-anchored self-screwing bolt be tested through the laboratory test and ifeld test.Besides,the convenient calculation formula and the feasibility to utilizing the initial anchor-hold to achieveing fast construction has been veriifed.%该文对双锚固自旋锚杆的破坏模型进行简化,分析其自旋段裸锚力的组成,对裸锚力理论公式进行推导,并提出一种裸锚力简便计算公式;通过室内和现场试验,测试了双锚固自旋锚杆的裸锚力大小,并验证了裸锚力计算公式的正确性与利用其初锚力实现锚杆快速安装与施工的可行性。

  9. Phenotypic and Functional Analysis of Porcine T Lymphocytes

    Institute of Scientific and Technical Information of China (English)

    李华; 陈应华

    2001-01-01

    Porcine and other higher mammals express clusters of differentiation (CD) antigens on the surface of T lymphocytes, such as CD2, CD3, CD4, CD8, etc. However, in porcine, a high percentage of the CD4+ CD8-T lymphocyte subpopulation exist in the peripheral blood and the ratio of the CD4+ and CD8+ T lymphocyte subpopulations is reversed. These differences bring new challenges to better understanding of the phenotype and function of porcine T lymphocytes in antigen recognition and immune response.

  10. Peax: interactive visual analysis and exploration of complex clinical phenotype and gene expression association.

    Science.gov (United States)

    Hinterberg, Michael A; Kao, David P; Bristow, Michael R; Hunter, Lawrence E; Port, J David; Görg, Carsten

    2015-01-01

    Increasing availability of high-dimensional clinical data, which improves the ability to define more specific phenotypes, as well as molecular data, which can elucidate disease mechanisms, is a driving force and at the same time a major challenge for translational and personalized medicine. Successful research in this field requires an approach that ties together specific disease and health expertise with understanding of molecular data through statistical methods. We present PEAX (Phenotype-Expression Association eXplorer), built upon open-source software, which integrates visual phenotype model definition with statistical testing of expression data presented concurrently in a web-browser. The integration of data and analysis tasks in a single tool allows clinical domain experts to obtain new insights directly through exploration of relationships between multivariate phenotype models and gene expression data, showing the effects of model definition and modification while also exploiting potential meaningful associations between phenotype and miRNA-mRNA regulatory relationships. We combine the web visualization capabilities of Shiny and D3 with the power and speed of R for backend statistical analysis, in order to abstract the scripting required for repetitive analysis of sub-phenotype association. We describe the motivation for PEAX, demonstrate its utility through a use case involving heart failure research, and discuss computational challenges and observations. We show that our visual web-based representations are well-suited for rapid exploration of phenotype and gene expression association, facilitating insight and discovery by domain experts. PMID:25592601

  11. Anchoring visions in organizations

    DEFF Research Database (Denmark)

    Simonsen, Jesper

    1999-01-01

    This paper introduces the term 'anchoring' within systems development: Visions, developed through early systems design within an organization, need to be deeply rooted in the organization. A vision's rationale needs to be understood by those who decide if the vision should be implemented as well...... anchoring is considered to be a main activity, is outlined. The task of anchoring visions is described, and techniques and activities are suggested with respect to those actors that have to act on the visions and the recommendations from a design proposal. The paper concludes that obtaining appropriate...

  12. Auditory hedonic phenotypes in dementia: A behavioural and neuroanatomical analysis.

    Science.gov (United States)

    Fletcher, Phillip D; Downey, Laura E; Golden, Hannah L; Clark, Camilla N; Slattery, Catherine F; Paterson, Ross W; Schott, Jonathan M; Rohrer, Jonathan D; Rossor, Martin N; Warren, Jason D

    2015-06-01

    Patients with dementia may exhibit abnormally altered liking for environmental sounds and music but such altered auditory hedonic responses have not been studied systematically. Here we addressed this issue in a cohort of 73 patients representing major canonical dementia syndromes (behavioural variant frontotemporal dementia (bvFTD), semantic dementia (SD), progressive nonfluent aphasia (PNFA) amnestic Alzheimer's disease (AD)) using a semi-structured caregiver behavioural questionnaire and voxel-based morphometry (VBM) of patients' brain MR images. Behavioural responses signalling abnormal aversion to environmental sounds, aversion to music or heightened pleasure in music ('musicophilia') occurred in around half of the cohort but showed clear syndromic and genetic segregation, occurring in most patients with bvFTD but infrequently in PNFA and more commonly in association with MAPT than C9orf72 mutations. Aversion to sounds was the exclusive auditory phenotype in AD whereas more complex phenotypes including musicophilia were common in bvFTD and SD. Auditory hedonic alterations correlated with grey matter loss in a common, distributed, right-lateralised network including antero-mesial temporal lobe, insula, anterior cingulate and nucleus accumbens. Our findings suggest that abnormalities of auditory hedonic processing are a significant issue in common dementias. Sounds may constitute a novel probe of brain mechanisms for emotional salience coding that are targeted by neurodegenerative disease. PMID:25929717

  13. Power Analysis and Sample Size Determination in Metabolic Phenotyping.

    Science.gov (United States)

    Blaise, Benjamin J; Correia, Gonçalo; Tin, Adrienne; Young, J Hunter; Vergnaud, Anne-Claire; Lewis, Matthew; Pearce, Jake T M; Elliott, Paul; Nicholson, Jeremy K; Holmes, Elaine; Ebbels, Timothy M D

    2016-05-17

    Estimation of statistical power and sample size is a key aspect of experimental design. However, in metabolic phenotyping, there is currently no accepted approach for these tasks, in large part due to the unknown nature of the expected effect. In such hypothesis free science, neither the number or class of important analytes nor the effect size are known a priori. We introduce a new approach, based on multivariate simulation, which deals effectively with the highly correlated structure and high-dimensionality of metabolic phenotyping data. First, a large data set is simulated based on the characteristics of a pilot study investigating a given biomedical issue. An effect of a given size, corresponding either to a discrete (classification) or continuous (regression) outcome is then added. Different sample sizes are modeled by randomly selecting data sets of various sizes from the simulated data. We investigate different methods for effect detection, including univariate and multivariate techniques. Our framework allows us to investigate the complex relationship between sample size, power, and effect size for real multivariate data sets. For instance, we demonstrate for an example pilot data set that certain features achieve a power of 0.8 for a sample size of 20 samples or that a cross-validated predictivity QY(2) of 0.8 is reached with an effect size of 0.2 and 200 samples. We exemplify the approach for both nuclear magnetic resonance and liquid chromatography-mass spectrometry data from humans and the model organism C. elegans.

  14. Cluster analysis in severe emphysema subjects using phenotype and genotype data: an exploratory investigation

    Directory of Open Access Journals (Sweden)

    Martinez Fernando J

    2010-03-01

    Full Text Available Abstract Background Numerous studies have demonstrated associations between genetic markers and COPD, but results have been inconsistent. One reason may be heterogeneity in disease definition. Unsupervised learning approaches may assist in understanding disease heterogeneity. Methods We selected 31 phenotypic variables and 12 SNPs from five candidate genes in 308 subjects in the National Emphysema Treatment Trial (NETT Genetics Ancillary Study cohort. We used factor analysis to select a subset of phenotypic variables, and then used cluster analysis to identify subtypes of severe emphysema. We examined the phenotypic and genotypic characteristics of each cluster. Results We identified six factors accounting for 75% of the shared variability among our initial phenotypic variables. We selected four phenotypic variables from these factors for cluster analysis: 1 post-bronchodilator FEV1 percent predicted, 2 percent bronchodilator responsiveness, and quantitative CT measurements of 3 apical emphysema and 4 airway wall thickness. K-means cluster analysis revealed four clusters, though separation between clusters was modest: 1 emphysema predominant, 2 bronchodilator responsive, with higher FEV1; 3 discordant, with a lower FEV1 despite less severe emphysema and lower airway wall thickness, and 4 airway predominant. Of the genotypes examined, membership in cluster 1 (emphysema-predominant was associated with TGFB1 SNP rs1800470. Conclusions Cluster analysis may identify meaningful disease subtypes and/or groups of related phenotypic variables even in a highly selected group of severe emphysema subjects, and may be useful for genetic association studies.

  15. The anchor of the frameless intrauterine device does not migrate over time: an analysis in over 300 women

    Directory of Open Access Journals (Sweden)

    Wildemeersch D

    2014-12-01

    Full Text Available Dirk Wildemeersch,1 Ansgar Pett,2 Sohela Jandi,2 Kilian Nolte,3 Wolfgang Albrecht4 1Gynecological Outpatient Clinic and IUD Training Centre, Ghent, Belgium; 2Gynecological Outpatient Clinic, Berlin, Germany; 3Gynecological Outpatient Clinic, Uetze, Germany; 4Gynecological Outpatient Clinic, Feldkirchen, Austria Objective: To evaluate the correct position of the anchor at insertion and follow-up and assess if migration of the anchor occurs over time. Materials and methods: This was an insertion-related, prospective, postmarketing study in 309 women. Following insertion, women were followed up at 4–6 weeks, 6 months, and yearly thereafter. The position of the visualized anchor in the fundus of the uterus was evaluated using ultrasound by measuring its distance from the serosal surface of the uterus (SA-distance. Results: A total of 309 parous (n=115 and nulliparous (n=194 women were fitted with the frameless GyneFix 200 or the GyneFix 330 intrauterine device for contraception. The mean SA-distance in 306 parous and nulliparous women was 6.0 mm (range 2.0–24.0 mm at insertion in the parous group and 5.4 mm (range 1.3–11.0 mm in the nulliparous group. At the first follow-up in 281 women, the SA-distance was 6.0 mm (range 2.0–12.0 mm in the parous group and 5.5 mm (range 1.1–11.0 mm in the nulliparous group. The SA-distance was not significantly different. One patient had an exceptionally large SA-distance of 24 mm, probably due to insertion in the posterior wall. No follow-up could be done in this patient. In 77 women, the SA-distance was measured up to 42 months. The mean SA-distance at insertion in the parous group was 5.2 mm (range 3.0–8.5 mm and 4.8 mm (range 1.3–7.0 mm in the nulliparous group. At the last follow-up up to 36 months or longer, the SA-distance was 5.1 mm (range 3.0–8.5 mm in the parous group and 4.9 mm (range 1.3–7.0 mm in the nulliparous group. The SA-distance was not significantly different. The visualized

  16. Anchor Trial Launch

    Science.gov (United States)

    NCI has launched a multicenter phase III clinical trial called the ANCHOR Study -- Anal Cancer HSIL (High-grade Squamous Intraepithelial Lesion) Outcomes Research Study -- to determine if treatment of HSIL in HIV-infected individuals can prevent anal canc

  17. Susceptibility to anchoring effects

    OpenAIRE

    Todd McElroy; Keith Dowd

    2007-01-01

    Previous research on anchoring has shown this heuristic to be a very robust psychological phenomenon ubiquitous across many domains of human judgment and decision-making. Despite the prevalence of anchoring effects, researchers have only recently begun to investigate the underlying factors responsible for how and in what ways a person is susceptible to them. This paper examines how one such factor, the Big-Five personality trait of openness-to-experience, influences the effect of previously p...

  18. The Analysis of Force State and Emphasis of Health Monitoring about the Anchor of Existing Bridge and Tunnel%既有桥梁隧道锚受力状态分析及健康监测重点

    Institute of Scientific and Technical Information of China (English)

    吕曹炯; 黄贵明; 张望胜; 叶梦君

    2015-01-01

    采用有限元软件对坝陵河大桥隧道锚进行受力状态分析,表明隧道锚整体是稳定的,需对局部区域加强监控。根据应力计算结果,需加强监控的区域是前锚室空腔上部、后锚室空腔上部和支墩远离锚体一侧的下部;根据位移计算结果,需加强监控的区域是支墩及前锚室区域处围岩、主缆护室和后锚室围岩。根据计算结果确定隧道锚运营期健康监测测点的布设,并指导实测数据分析。%Numerical analysis about force state of the anchor of Balinghe Bridge and tunnel by using fi-nite element software has been performed in this paper.The results show that the anchor of tunnel is stable and partial location needs strengthening monitoring.According to the stress calculating results, the parts which need strengthening monitoring are the upside of former anchor chamber and behind anchor chamber and one side of lower part of buttress which is far from anchor.According to the dis-placement calculating results,the parts which need strengthening monitoring are the surrounding rock around buttress and former anchor chamber and behind anchor chamber,the protection chamber of main cable.The results of this paper have guiding significance to the measuring point arrangement of health monitoring in operation period and the analysis of measured data of tunnel anchor.

  19. Cluster analysis of spontaneous preterm birth phenotypes identifies potential associations among preterm birth mechanisms

    Science.gov (United States)

    Esplin, M Sean; Manuck, Tracy A.; Varner, Michael W.; Christensen, Bryce; Biggio, Joseph; Bukowski, Radek; Parry, Samuel; Zhang, Heping; Huang, Hao; Andrews, William; Saade, George; Sadovsky, Yoel; Reddy, Uma M.; Ilekis, John

    2015-01-01

    Objective We sought to employ an innovative tool based on common biological pathways to identify specific phenotypes among women with spontaneous preterm birth (SPTB), in order to enhance investigators' ability to identify to highlight common mechanisms and underlying genetic factors responsible for SPTB. Study Design A secondary analysis of a prospective case-control multicenter study of SPTB. All cases delivered a preterm singleton at SPTB ≤34.0 weeks gestation. Each woman was assessed for the presence of underlying SPTB etiologies. A hierarchical cluster analysis was used to identify groups of women with homogeneous phenotypic profiles. One of the phenotypic clusters was selected for candidate gene association analysis using VEGAS software. Results 1028 women with SPTB were assigned phenotypes. Hierarchical clustering of the phenotypes revealed five major clusters. Cluster 1 (N=445) was characterized by maternal stress, cluster 2 (N=294) by premature membrane rupture, cluster 3 (N=120) by familial factors, and cluster 4 (N=63) by maternal comorbidities. Cluster 5 (N=106) was multifactorial, characterized by infection (INF), decidual hemorrhage (DH) and placental dysfunction (PD). These three phenotypes were highly correlated by Chi-square analysis [PD and DH (p<2.2e-6); PD and INF (p=6.2e-10); INF and DH (p=0.0036)]. Gene-based testing identified the INS (insulin) gene as significantly associated with cluster 3 of SPTB. Conclusion We identified 5 major clusters of SPTB based on a phenotype tool and hierarchal clustering. There was significant correlation between several of the phenotypes. The INS gene was associated with familial factors underlying SPTB. PMID:26070700

  20. Analysis of the human diseasome using phenotype similarity between common, genetic, and infectious diseases

    Science.gov (United States)

    Hoehndorf, Robert; Schofield, Paul N.; Gkoutos, Georgios V.

    2015-06-01

    Phenotypes are the observable characteristics of an organism arising from its response to the environment. Phenotypes associated with engineered and natural genetic variation are widely recorded using phenotype ontologies in model organisms, as are signs and symptoms of human Mendelian diseases in databases such as OMIM and Orphanet. Exploiting these resources, several computational methods have been developed for integration and analysis of phenotype data to identify the genetic etiology of diseases or suggest plausible interventions. A similar resource would be highly useful not only for rare and Mendelian diseases, but also for common, complex and infectious diseases. We apply a semantic text-mining approach to identify the phenotypes (signs and symptoms) associated with over 6,000 diseases. We evaluate our text-mined phenotypes by demonstrating that they can correctly identify known disease-associated genes in mice and humans with high accuracy. Using a phenotypic similarity measure, we generate a human disease network in which diseases that have similar signs and symptoms cluster together, and we use this network to identify closely related diseases based on common etiological, anatomical as well as physiological underpinnings.

  1. Analysis of the human diseasome using phenotype similarity between common, genetic, and infectious diseases

    KAUST Repository

    Hoehndorf, Robert

    2015-06-08

    Phenotypes are the observable characteristics of an organism arising from its response to the environment. Phenotypes associated with engineered and natural genetic variation are widely recorded using phenotype ontologies in model organisms, as are signs and symptoms of human Mendelian diseases in databases such as OMIM and Orphanet. Exploiting these resources, several computational methods have been developed for integration and analysis of phenotype data to identify the genetic etiology of diseases or suggest plausible interventions. A similar resource would be highly useful not only for rare and Mendelian diseases, but also for common, complex and infectious diseases. We apply a semantic text-mining approach to identify the phenotypes (signs and symptoms) associated with over 6,000 diseases. We evaluate our text-mined phenotypes by demonstrating that they can correctly identify known disease-associated genes in mice and humans with high accuracy. Using a phenotypic similarity measure, we generate a human disease network in which diseases that have similar signs and symptoms cluster together, and we use this network to identify closely related diseases based on common etiological, anatomical as well as physiological underpinnings.

  2. An Analytical Method for Positioning Drag Anchors in Seabed Soils

    Institute of Scientific and Technical Information of China (English)

    张炜; 刘海笑; 李新仲; 李清平; 曹静

    2015-01-01

    Positioning drag anchors in seabed soils are strongly influenced not only by the properties of the anchor and soil, but also by the characteristics of the installation line. The investigation on the previous prediction methods related to anchor positioning demonstrates that the prediction of the anchor position during dragging has inevitably introduced some key and unsubstantiated hypotheses and the applicability of these methods is limited. In the present study, the interactional system between the drag anchor and installation line is firstly introduced for the analysis of anchor positioning. Based on the two mechanical models for embedded lines and drag anchors, the positioning equations for drag anchors have been derived both for cohesive and noncohesive soils. Since the drag angle at the shackle is the most important parameter in the positioning equations, a novel analytical method that can predict both the variation and the exact value of the drag angle at the shackle is proposed. The analytical method for positioning drag anchors which combines the interactional system between the drag anchor and the installation line has provided a reasonable theoretic approach to investigate the anchor behaviors in soils. By comparing with the model flume experiments, the sensitivity, effectiveness and veracity of the positioning method are well verified.

  3. Recent Study of Drag Embedment Plate Anchors in China

    Institute of Scientific and Technical Information of China (English)

    Haixiao Liu

    2012-01-01

    Experimental and theoretical studies of drag embedment plate anchors recently carried out in Tianjin University are summarized in this research paper,which involve a series of important topics relevant to the study of drag anchors.The techniques for measuring the trajectory and movement direction of drag anchors in soils,the techniques for measuring the moving embedment point and reverse catenary shape of the embedded drag line,the penetration mechanism and kinematic behavior of drag anchors,the ultimate embedment depth of drag anchors,the movement direction of the anchor with an arbitrary fluke section,the reverse catenary properties of the embedded drag line,the interactional properties between drag anchor and installation line,the kinematic model of drag anchors in seabed soils,and the analytical method for predicting the anchor trajectory in soils will all be examined.The present work remarkably reduces the uncertainties in design and analysis of drag embedment plate anchors,and is beneficial to improving the application of this new type of drag anchor in offshore engineering.

  4. FragAnchor: A Large-Scale Predictor of Glycosylphosphatidylinositol Anchors in Eukaryote Protein Sequences by Qualitative Scoring

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    A glycosylphosphatidylinositol (GPI) anchor is a common but complex C-terminal post-translational modification of extracellular proteins in eukaryotes. Here we investigate the problem of correctly annotating GPI-anchored proteins for the growing number of sequences in public databases. We developed a computational system, called FragAnchor, based on the tandem use of a neural network (NN) and a hidden Markov model (HMM). Firstly, NN selects potential GPI-anchored proteins in a dataset, then HMM parses these potential GPI signals and refines the prediction by qualitative scoring. FragAnchor correctly predicted 91% of all the GPI-anchored proteins annotated in the Swiss-Prot database.In a large-scale analysis of 29 eukaryote proteomes, FragAnchor predicted that the percentage of highly probable GPI-anchored proteins is between 0.21% and 2.01%. The distinctive feature of FragAnchor, compared with other systems,is that it targets only the C-terminus of a protein, making it less sensitive to the background noise found in databases and possible incomplete protein sequences. Moreover, FragAnchor can be used to predict GPI-anchored proteins in all eukaryotes. Finally, by using qualitative scoring, the predictions combine both sensitivity and information content. The predictor is publicly available at http: // navet. ics. hawaii.edu/~fraganchor/NNHMM/NNHMM.html.

  5. Image analysis and platform development for automated phenotyping in cytomics

    NARCIS (Netherlands)

    Yan, Kuan

    2013-01-01

    This thesis is dedicated to the empirical study of image analysis in HT/HC screen study. Often a HT/HC screening produces extensive amounts that cannot be manually analyzed. Thus, an automated image analysis solution is prior to an objective understanding of the raw image data. Compared to general a

  6. Trisomy 2p: Analysis of unusual phenotypic findings

    Energy Technology Data Exchange (ETDEWEB)

    Lurie, I.W.; Ilyina, H.G.; Gurevich, D.B. [Belorussian Research Institute of Hereditary Disease, Minsk (Russian Federation)] [and others

    1995-01-16

    We present three probands with partial trisomies 2p21-23 due to ins(4;2)(q21;p21p23) pat, 2p23-pter due to t(2;4)(p23;q35)mat, and 2p21-pter due to t(2;11)(p21;q23.3)mat. More than 50 cases of partial trisomy 2p have been reviewed and some abnormalities, unusual for most other types of structural autosomal imbalance, have been found in patients with inherited forms of 2p trisomy and in their non-karyotyped sibs. Neural tube defects (anencephaly, occipital encephalocele, and spina bifida) were found in five probands and 4/6 affected non-karyotyped sibs. The only triplicated segment common to all was 2p24. Different forms of {open_quotes}broncho-pulmonary a/hypoplasia{close_quotes} (including two cases of lung agenesis) were described in four patients (overlapping triplicated segment was 2p21-p25). Three patients (with overlapping triplicated segment 2p23-p25) had diaphragmatic hernia. Abnormal rotation of the heart or L-transposition of large vessels (with or without visceral heterotaxia) was found in two infants (overlapping triplicated segment 2p23-p24). In two patients with common triplicated segment 2p22.3-p25, neuroblastoma has been described. The occurrence of all these defects may be explained either by the action of the same gene(s) mapped to 2p24 or by action of some independent factors located in different segments of the short arm. Although the latter hypothesis is much less probable, it can not be rejected at the present time. We propose the existence of a genetic system controlling surveillance of an abnormal embryo to explain the phenotypic differences between patients with the same imbalance within a family. In some {open_quotes}restrictive{close_quotes} combinations the abnormal embryos will die, although in {open_quotes}permissive{close_quotes} combinations they can survive. 47 refs., 2 figs., 3 tabs.

  7. Simplified Analytical Method for Optimized Initial Shape Analysis of Self-Anchored Suspension Bridges and Its Verification

    Directory of Open Access Journals (Sweden)

    Myung-Rag Jung

    2015-01-01

    Full Text Available A simplified analytical method providing accurate unstrained lengths of all structural elements is proposed to find the optimized initial state of self-anchored suspension bridges under dead loads. For this, equilibrium equations of the main girder and the main cable system are derived and solved by evaluating the self-weights of cable members using unstrained cable lengths and iteratively updating both the horizontal tension component and the vertical profile of the main cable. Furthermore, to demonstrate the validity of the simplified analytical method, the unstrained element length method (ULM is applied to suspension bridge models based on the unstressed lengths of both cable and frame members calculated from the analytical method. Through numerical examples, it is demonstrated that the proposed analytical method can indeed provide an optimized initial solution by showing that both the simplified method and the nonlinear FE procedure lead to practically identical initial configurations with only localized small bending moment distributions.

  8. Frailty phenotypes in the elderly based on cluster analysis

    DEFF Research Database (Denmark)

    Dato, Serena; Montesanto, Alberto; Lagani, Vincenzo;

    2012-01-01

    genetic background on the frailty status is still questioned. We investigated the applicability of a cluster analysis approach based on specific geriatric parameters, previously set up and validated in a southern Italian population, to two large longitudinal Danish samples. In both cohorts, we identified...

  9. Analysis of malaria parasite phenotypes using experimental genetic crosses of Plasmodium falciparum

    OpenAIRE

    Ranford-Cartwright, Lisa C; Mwangi, Jonathan M.

    2012-01-01

    We review the principles of linkage analysis of experimental genetic crosses and their application to Plasmodium falciparum. Three experimental genetic crosses have been performed using the human malaria parasite P. falciparum. Linkage analysis of the progeny of these crosses has been used to identify parasite genes important in phenotypes such as drug resistance, parasite growth and virulence, and transmission to mosquitoes. The construction and analysis of genetic maps has been used to char...

  10. Biophysical parameters analysis over the Valencia Anchor Station in the framework of SMOS Vegetation Optical Depth Validation Activities (2010-2013)

    Science.gov (United States)

    Salgado Hernanz, Paula Maria; Fernandez Moran, Roberto; Wigneron, Jean Pierre; Lopez Baeza, Ernesto

    2014-05-01

    The SMOS (Soil Moisture and Ocean Salinity) Mission was successfully launched on 2nd November 2009 as the second ESA Earth Explorer Opportunity Mission within the framework of ESA's Living Planet Programme. Referring to continental surfaces, one of the main objectives of SMOS is to improve the knowledge of the Earth's Water Cycle through the global observation of soil moisture and the study of the effect of vegetation. The Valencia Anchor Station (VAS) is a relatively homogeneous area of 50 x 50 km2 composed mainly by vineyards (65%) and other Mediterranean vegetation cover types (30%). It is placed in the natural region of the Utiel - Requena Plateau, about 80 km west of the city of Valencia. The VAS was selected by ESA and the SMOS Science Group in October 2006 as one of the core validation sites for SMOS land data and products, and it is currently a long term validation site of SMOS level 2 and 3 products. In addition, it is being considered in the framework of the forthcoming NASA SMAP (Soil Moisture Active and Passive) and ESA SENTINEL-3 OLCI (Ocean & Land Colour Instrument) validation activities. The study establishes an analysis of the biophysical parameter vegetation optical depth (TAU) taken from the SMOS satellite level 3 products and from the microwave L-band ESA radiometer ELBARA-II situated at the MELBEX-III site (Mediterranean Ecosystem L-Band Characterization Experiment) at the Valencia Anchor Station. The vegetation optical depth parameter depends on vegetation water content (VWC), biomass, vegetation dynamics and transmissivity of the plant. Consequently, the objective of this study is to assess, in the Valencia Anchor Station area, the relationship of TAU SMOS and TAU ELBARA-II with other vegetation indices related with different vegetation characteristics. On the one hand, TAU is correlated with the Normalized Difference Vegetation Index (NDVI) and the Enhanced Vegetation Index (EVI) obtained from MODIS and, on the other hand, with the Leaf Area

  11. Molecular Analysis Expands the Spectrum of Phenotypes Associated with GLI3 Mutations

    NARCIS (Netherlands)

    J.J. Johnston; J.C. Sapp; J.T. Turner; D. Amor; S. Aftimos; K.A. Aleck; M. Bocian; J.N. Bodurtha; G.F. Cox; C.J. Curry; R. Day; D. Donnai; M. Field; I. Fujiwara; M. Gabbett; M. Gal; J.M. Graham Jr; P. Hedera; R.C.M. Hennekam; J.H. Hersh; R.J. Hopkin; H. Kayserili; A.M.J. Kidd; V. Kimonis; A.E. Lin; S.A. Lynch; M. Maisenbacher; S. Mansour; J. McGaughran; L. Mehta; H. Murphy; M. Raygada; N.H. Robin; A.F. Rope; K.N. Rosenbaum; G.B. Schaefer; A. Shealy; W. Smith; M. Soller; A Sommer; H.J. Stalker; B. Steiner; M.J. Stephan; D. Tilstra; S. Tomkins; P. Trapane; A.C.H. Tsai; M.I. van Allen; P.C. Vasudevan; B. Zabel; J. Zunich; G.C.M. Black; L.G. Biesecker

    2010-01-01

    A range of phenotypes including Greig cephalopolysyndactyly and Pallister-Hall syndromes (GCPS, PHS) are caused by pathogenic mutation of the GLI3 gene. To characterize the clinical variability of GLI3 mutations, we present a subset of a cohort of 174 probands referred for GLI3 analysis. Eighty-one

  12. Genotype-phenotype correlations in L1 syndrome : a guide for genetic counselling and mutation analysis

    NARCIS (Netherlands)

    Vos, Yvonne J.; de Walle, Hermien E. K.; Bos, Krista K.; Stegeman, Jenneke A.; ten Berge, Annelies M.; Bruining, Martijn; van Maarle, Merel C.; Elting, Mariet W.; den Hollander, Nicolette S.; Hamel, Ben; Fortuna, Ana Maria; Sunde, Lone E. M.; Stolte-Dijkstra, Irene; Schrander-Stumpel, Connie T. R. M.; Hofstra, Robert M. W.

    2010-01-01

    Objectives To develop a comprehensive mutation analysis system with a high rate of detection, to develop a tool to predict the chance of detecting a mutation in the L1CAM gene, and to look for genotype-phenotype correlations in the X-linked recessive disorder, L1 syndrome. Methods DNA from 367 refer

  13. WormScan: a technique for high-throughput phenotypic analysis of Caenorhabditis elegans.

    Directory of Open Access Journals (Sweden)

    Mark D Mathew

    Full Text Available BACKGROUND: There are four main phenotypes that are assessed in whole organism studies of Caenorhabditis elegans; mortality, movement, fecundity and size. Procedures have been developed that focus on the digital analysis of some, but not all of these phenotypes and may be limited by expense and limited throughput. We have developed WormScan, an automated image acquisition system that allows quantitative analysis of each of these four phenotypes on standard NGM plates seeded with E. coli. This system is very easy to implement and has the capacity to be used in high-throughput analysis. METHODOLOGY/PRINCIPAL FINDINGS: Our system employs a readily available consumer grade flatbed scanner. The method uses light stimulus from the scanner rather than physical stimulus to induce movement. With two sequential scans it is possible to quantify the induced phototactic response. To demonstrate the utility of the method, we measured the phenotypic response of C. elegans to phosphine gas exposure. We found that stimulation of movement by the light of the scanner was equivalent to physical stimulation for the determination of mortality. WormScan also provided a quantitative assessment of health for the survivors. Habituation from light stimulation of continuous scans was similar to habituation caused by physical stimulus. CONCLUSIONS/SIGNIFICANCE: There are existing systems for the automated phenotypic data collection of C. elegans. The specific advantages of our method over existing systems are high-throughput assessment of a greater range of phenotypic endpoints including determination of mortality and quantification of the mobility of survivors. Our system is also inexpensive and very easy to implement. Even though we have focused on demonstrating the usefulness of WormScan in toxicology, it can be used in a wide range of additional C. elegans studies including lifespan determination, development, pathology and behavior. Moreover, we have even adapted the

  14. Condensing Raman spectrum for single-cell phenotype analysis

    KAUST Repository

    Sun, Shiwei

    2015-12-09

    Background In recent years, high throughput and non-invasive Raman spectrometry technique has matured as an effective approach to identification of individual cells by species, even in complex, mixed populations. Raman profiling is an appealing optical microscopic method to achieve this. To fully utilize Raman proling for single-cell analysis, an extensive understanding of Raman spectra is necessary to answer questions such as which filtering methodologies are effective for pre-processing of Raman spectra, what strains can be distinguished by Raman spectra, and what features serve best as Raman-based biomarkers for single-cells, etc. Results In this work, we have proposed an approach called rDisc to discretize the original Raman spectrum into only a few (usually less than 20) representative peaks (Raman shifts). The approach has advantages in removing noises, and condensing the original spectrum. In particular, effective signal processing procedures were designed to eliminate noise, utilising wavelet transform denoising, baseline correction, and signal normalization. In the discretizing process, representative peaks were selected to signicantly decrease the Raman data size. More importantly, the selected peaks are chosen as suitable to serve as key biological markers to differentiate species and other cellular features. Additionally, the classication performance of discretized spectra was found to be comparable to full spectrum having more than 1000 Raman shifts. Overall, the discretized spectrum needs about 5storage space of a full spectrum and the processing speed is considerably faster. This makes rDisc clearly superior to other methods for single-cell classication.

  15. Markov chain Monte Carlo linkage analysis of a complex qualitative phenotype.

    Science.gov (United States)

    Hinrichs, A; Lin, J H; Reich, T; Bierut, L; Suarez, B K

    1999-01-01

    We tested a new computer program, LOKI, that implements a reversible jump Markov chain Monte Carlo (MCMC) technique for segregation and linkage analysis. Our objective was to determine whether this software, designed for use with continuously distributed phenotypes, has any efficacy when applied to the discrete disease states of the simulated data from the Mordor data from GAW Problem 1. Although we were able to identify the genomic location for two of the three quantitative trait loci by repeated application of the software, the MCMC sampler experienced significant mixing problems indicating that the method, as currently formulated in LOKI, was not suitable for the discrete phenotypes in this data set. PMID:10597502

  16. PhenStat: A Tool Kit for Standardized Analysis of High Throughput Phenotypic Data.

    Directory of Open Access Journals (Sweden)

    Natalja Kurbatova

    Full Text Available The lack of reproducibility with animal phenotyping experiments is a growing concern among the biomedical community. One contributing factor is the inadequate description of statistical analysis methods that prevents researchers from replicating results even when the original data are provided. Here we present PhenStat--a freely available R package that provides a variety of statistical methods for the identification of phenotypic associations. The methods have been developed for high throughput phenotyping pipelines implemented across various experimental designs with an emphasis on managing temporal variation. PhenStat is targeted to two user groups: small-scale users who wish to interact and test data from large resources and large-scale users who require an automated statistical analysis pipeline. The software provides guidance to the user for selecting appropriate analysis methods based on the dataset and is designed to allow for additions and modifications as needed. The package was tested on mouse and rat data and is used by the International Mouse Phenotyping Consortium (IMPC. By providing raw data and the version of PhenStat used, resources like the IMPC give users the ability to replicate and explore results within their own computing environment.

  17. Undiagnosed genetic muscle disease in the north of England: an in depth phenotype analysis.

    Science.gov (United States)

    Harris, Elizabeth; Laval, Steve; Hudson, Judith; Barresi, Rita; De Waele, Liesbeth; Straub, Volker; Lochmüller, Hanns; Bushby, Kate; Sarkozy, Anna

    2013-01-01

    Advances in the molecular characterisation of genetic muscle disease has been rapid, as demonstrated by a recent analysis of these conditions in the north of England by Norwood et al (2009), in which a genetic diagnosis was achieved for 75.7% of patients. However, there remain many patients with suspected genetic muscle disease in who a diagnosis is not obtained, often despite considerable diagnostic effort, and these patients are now being considered for the application of new technologies such as next generation sequencing. This study aimed to provide an in-depth phenotype analysis of undiagnosed patients referred to the Northern region muscle clinic with suspected genetic muscle disease, with the intention of gaining insight into these conditions, identifing cases with a shared phenotype who may be amenable to collective diagnostic testing or research, and evaluating the strengths and limitations of our current diagnostic strategy. We used two approaches: a review of clinical findings in patients with undiagnosed muscle disease, and a hierarchical cluster analysis to provide an unbiased interpretation of the phenotype data. These joint approaches identified a correlation of phenotypic features according to the age of disease onset and also delineated several interesting groups of patients, as well as highlighting areas of frequent diagnostic difficulty that could benefit from the use of new high-throughput diagnostic techniques. Correspondence to: anna.sarkozy@ncl.ac.uk. PMID:23788081

  18. Fibre-Reinforced Adhesive for Structure Anchoring

    Science.gov (United States)

    Barnat, J.; Bajer, M.

    2015-11-01

    The topic of this paper is the glue-concrete interface of bonded anchors loaded by tension force. The paper is closely focused on bond strength experiments using high strength concrete up to class C50/60 or higher together with pure epoxy resin and fibre-reinforced resin. The goal of this research is to find the limits of the effective use of such glue types in high performance concrete, and also to verify the most commonly used design methods for bonded anchors. The presented research includes experimental analysis of the glue-concrete interface and the influence of its parameters on anchor behaviour. The presented analysis shows some problems of the 'separated failure modes' approach and also presents experimentally verified bond strength values obtained for the currently most widespread glue types. Results of fibre reinforced epoxy resin are also presented in this paper.

  19. Hair Analysis for Determination of Isoniazid Concentrations and Acetylator Phenotype during Antituberculous Treatment

    OpenAIRE

    Michael Eisenhut; Detlef Thieme; Dagmar Schmid; Sybille Fieseler; Hans Sachs

    2012-01-01

    Background. Analysis of isoniazid (INH) uptake has been based on measurement of plasma concentrations providing a short-term and potentially biased view. Objectives. To establish hair analysis as a tool to measure long-term uptake of INH and to assess whether acetylator phenotype in hair reflects N-acetyltransferase-2 (NAT2) genotype. Design and Methods. INH and acetyl-INH concentrations in hair were determined in patients on INH treatment for M. tuberculosis infection using high pressure liq...

  20. Automated local bright feature image analysis of nuclear proteindistribution identifies changes in tissue phenotype

    Energy Technology Data Exchange (ETDEWEB)

    Knowles, David; Sudar, Damir; Bator, Carol; Bissell, Mina

    2006-02-01

    The organization of nuclear proteins is linked to cell and tissue phenotypes. When cells arrest proliferation, undergo apoptosis, or differentiate, the distribution of nuclear proteins changes. Conversely, forced alteration of the distribution of nuclear proteins modifies cell phenotype. Immunostaining and fluorescence microscopy have been critical for such findings. However, there is an increasing need for quantitative analysis of nuclear protein distribution to decipher epigenetic relationships between nuclear structure and cell phenotype, and to unravel the mechanisms linking nuclear structure and function. We have developed imaging methods to quantify the distribution of fluorescently-stained nuclear protein NuMA in different mammary phenotypes obtained using three-dimensional cell culture. Automated image segmentation of DAPI-stained nuclei was generated to isolate thousands of nuclei from three-dimensional confocal images. Prominent features of fluorescently-stained NuMA were detected using a novel local bright feature analysis technique, and their normalized spatial density calculated as a function of the distance from the nuclear perimeter to its center. The results revealed marked changes in the distribution of the density of NuMA bright features as non-neoplastic cells underwent phenotypically normal acinar morphogenesis. In contrast, we did not detect any reorganization of NuMA during the formation of tumor nodules by malignant cells. Importantly, the analysis also discriminated proliferating non-neoplastic cells from proliferating malignant cells, suggesting that these imaging methods are capable of identifying alterations linked not only to the proliferation status but also to the malignant character of cells. We believe that this quantitative analysis will have additional applications for classifying normal and pathological tissues.

  1. Distribution of shear stress on resin bolt of anchoring rods and its damage model analysis%树脂锚杆锚固段剪应力分布及其损伤模式分析

    Institute of Scientific and Technical Information of China (English)

    李青锋; 易厚; 朱川曲

    2016-01-01

    为了分析树脂锚杆锚固段剪应力分布及其承载、损伤机理,提高树脂锚杆支护在煤矿现场应用的有效性,首先根据煤矿树脂锚杆的围岩环境和受力特点,基于集中载荷作用于半无限体表面和无限体内部的弹性力学解得到了树脂锚杆在非锚固段围岩破碎和完整时的锚固段锚固界面剪应力计算式,分析了锚杆杆体拉力在锚固段锚固界面的剪应力形成机理;然后采用FLAC数值模拟软件模拟了树脂锚杆锚固段的承载及变形,得到了树脂锚杆在一定载荷和围压作用下锚固界面塑性发展趋势;最后以混凝土试块模拟围岩,并在混凝土试块预留孔中锚固了树脂锚杆进行实验室拉拔试验,得到了树脂锚杆锚固段剪应力分布及其增加趋势.结果表明,树脂锚杆剪应力开始时呈负指数形态分布,随着锚杆拉应力的增大,锚固起始端剪切破坏剪应力降低,无围压时峰值剪应力迅速向较深部锚固界面移动并锚固失效,有围压时锚固界面在锚固起始端剪切破坏后仍有较大的锚杆拉应力发展范围.%In order to analysis the distribution, loading and damage mechanism of resin anchoring bolt anchorage shear stress, and to improve the effectiveness of the application of resin bolt support in coal mine field. According to the surrounding environment and the mechanical characteristics of resin anchoring bolt in coal mine , based on the elastic mechanics solution of concentrates on load ACTS on the surface of semi-infinite body and infinite internal body, that of shear stress calculation formula of anchorage, resin anchoring bolt in the anchoring of surrounding broken and full of the anchoring interface, was gotten and then shear stress formation mechanism, that of the anchor rod body tension in the interface of anchoring anchorage, was analysized; By using the FLAC numerical simulation software to simulate the bearing and deformation of resin anchoring bolt

  2. Database Description - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us The Rice Growth...f database Database name The Rice Growth Monitoring for the Phenotypic Functional Analysis Alternative name ...ory of This Database Site Policy | Contact Us Database Description - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive ...

  3. Effective diagnosis of genetic disease by computational phenotype analysis of the disease-associated genome.

    Science.gov (United States)

    Zemojtel, Tomasz; Köhler, Sebastian; Mackenroth, Luisa; Jäger, Marten; Hecht, Jochen; Krawitz, Peter; Graul-Neumann, Luitgard; Doelken, Sandra; Ehmke, Nadja; Spielmann, Malte; Oien, Nancy Christine; Schweiger, Michal R; Krüger, Ulrike; Frommer, Götz; Fischer, Björn; Kornak, Uwe; Flöttmann, Ricarda; Ardeshirdavani, Amin; Moreau, Yves; Lewis, Suzanna E; Haendel, Melissa; Smedley, Damian; Horn, Denise; Mundlos, Stefan; Robinson, Peter N

    2014-09-01

    Less than half of patients with suspected genetic disease receive a molecular diagnosis. We have therefore integrated next-generation sequencing (NGS), bioinformatics, and clinical data into an effective diagnostic workflow. We used variants in the 2741 established Mendelian disease genes [the disease-associated genome (DAG)] to develop a targeted enrichment DAG panel (7.1 Mb), which achieves a coverage of 20-fold or better for 98% of bases. Furthermore, we established a computational method [Phenotypic Interpretation of eXomes (PhenIX)] that evaluated and ranked variants based on pathogenicity and semantic similarity of patients' phenotype described by Human Phenotype Ontology (HPO) terms to those of 3991 Mendelian diseases. In computer simulations, ranking genes based on the variant score put the true gene in first place less than 5% of the time; PhenIX placed the correct gene in first place more than 86% of the time. In a retrospective test of PhenIX on 52 patients with previously identified mutations and known diagnoses, the correct gene achieved a mean rank of 2.1. In a prospective study on 40 individuals without a diagnosis, PhenIX analysis enabled a diagnosis in 11 cases (28%, at a mean rank of 2.4). Thus, the NGS of the DAG followed by phenotype-driven bioinformatic analysis allows quick and effective differential diagnostics in medical genetics. PMID:25186178

  4. Behavioral Analysis of Dopaminergic Activation in Zebrafish and Rats Reveals Similar Phenotypes.

    Science.gov (United States)

    Ek, Fredrik; Malo, Marcus; Åberg Andersson, Madelene; Wedding, Christoffer; Kronborg, Joel; Svensson, Peder; Waters, Susanna; Petersson, Per; Olsson, Roger

    2016-05-18

    Zebrafish is emerging as a complement to mammals in behavioral studies; however, there is a lack of comparative studies with rodents and humans to establish the zebrafish as a predictive translational model. Here we present a detailed phenotype evaluation of zebrafish larvae, measuring 300-3000 variables and analyzing them using multivariate analysis to identify the most important ones for further evaluations. The dopamine agonist apomorphine has previously been shown to have a complex U-shaped dose-response relationship in the variable distance traveled. In this study, we focused on breaking down distance traveled into more detailed behavioral phenotypes for both zebrafish and rats and identified in the multivariate analysis low and high dose phenotypes with characteristic behavioral features. Further analysis of single parameters also identified an increased activity at the lowest concentration indicative of a U-shaped dose-response. Apomorphine increased the distance of each swim movement (bout) at both high and low doses, but the underlying behavior of this increase is different; at high dose, both bout duration and frequency increased whereas bout max speed was higher at low dose. Larvae also displayed differences in place preference. The low dose phenotype spent more time in the center, indicative of an anxiolytic effect, while the high-dose phenotype had a wall preference. These dose-dependent effects corroborated findings in a parallel rat study and previous observations in humans. The translational value of pharmacological zebrafish studies was further evaluated by comparing the amino acid sequence of the dopamine receptors (D1-D4), between zebrafish, rats and humans. Humans and zebrafish share 100% of the amino acids in the binding site for D1 and D3 whereas D2 and D4 receptors share 85-95%. Molecular modeling of dopamine D2 and D4 receptors indicated that nonconserved amino acids have limited influence on important ligand-receptor interactions. PMID

  5. PULLOUT CAPACITY OF HORIZONTAL AND INCLINED PLATE ANCHORS IN CLAYEY SOILS

    Directory of Open Access Journals (Sweden)

    BALESHWAR SINGH

    2011-11-01

    Full Text Available Soil anchors are required to withstand uplift or lateral forces acting on the foundations of structures constructed both in land and offshore sites. Plate anchoring system is being increasingly used to moor floating structures for the exploration and development of oil and gas fields. In this study, various experimental,theoretical and numerical approaches for estimation of pullout capacity of horizontal and inclined plate anchors in clayey soils are reviewed. A comparative analysis of the ultimate capacity is then carried out for plate anchors embedded in clayey soils by varying embedment ratio for horizontal anchors and by varying inclination angle for inclined plate anchors.

  6. Arrangement of anchor reinforcement in roadway for fully mechanized sublevel caving

    Institute of Scientific and Technical Information of China (English)

    勾攀峰; 陈启永; 芦付松

    2003-01-01

    Bolting of mining roadway for fully mechanized sublevel caving has been practised successfully in Hebi mining area.It provides a new method for roadway support and settles the problem of support difficulty radically for sublevel caving in Hebi mining area.Where anchor reinforcement holds an important station in roadway support.This article brings forward the arrangement project of anchor based on theoretic analysis.Compared with arranged in the middle of the entry, anchor arranged in the vertex of the entry can reduces the length of anchor,shortens the anchor installation time,and heightens the reliability of anchor installation.

  7. Synthetical deformation analysis of anchor bolt in jointed rock mass%节理岩体锚杆的综合变形分析

    Institute of Scientific and Technical Information of China (English)

    张伟; 刘泉声

    2012-01-01

    of interaction between bolts and rock mass is analyzed. Relationships between tangential load and tangential displacement, and axial load and axial displacement are deduced respectively. Through the analysis of yield failure model of bolt, a method to calculate the length of the crushing failure zone is proposed. Finally, a calculation example is presented to study the relationship between the length of crushing failure zone and the parameters, such as the bolt diameter, the rock mass strength, anchorage angle and so on. It is concluded that: (1) The shear resisting function of joint bolts is actually that the bolts arouse the compressive strength of rock mass to resist the shear load of the joint plane. In the hard rock with higher compressive strength, the crushing failure zone is limited near the joint plane and the influence area of bolt is small; while in soft rock with lower compressive strength, the length of crushing failure zone and shear deformation and the influence area of bolt is larger. (2) The yield failure mode of anchor bolt is related to rock properties and diameter of the bolt. Shear yield occurs in hard rock and bending yield occurs in soft rock. Bolt with little diameter usually go through shear yield and bolt with large diameter may go through bending yield. After yield failure, the plastic hinge appears. The length of the crushing failure zone on one side of the joint is 1-2 times of the bolt diameter, however, it no longer increases with the increasing of shear load. (3) The optimal anchor supporting angle of joint anchor bolt varies with rock properties. Hard rock has a smaller anchor supporting angle and the soft rock has a larger one.

  8. Analysis of mechanical properties of fully anchored pre-stressed resin bolts and their application%全长锚固预应力树脂锚杆受力特性分析及应用

    Institute of Scientific and Technical Information of China (English)

    梁新民; 张永达; 胡光球; 王莉; 明世祥

    2015-01-01

    Traditional anchoring mechanism is mostly concerned on the stress state of rock bolt itself, while the laws of interaction between overall rock bolt structure and surrounding rocks are rarely studied.In this paper the means of theoretical analysis and filed test are used to analyze the interaction mechanics among the bolt,tray,anchoring agent from the perspectives of the axial anchoring effect,supporting anchoring effect and lateral anchoring effect of the fully anchored pre-stressed resin bolt,and the stress distribution of bolts during its long-term interaction is analyzed as well. In-situ supporting tests verified the anchoring effect of the fully anchored pre-stressed resin bolt.The conclusion pro-vides theoretical reference for the supporting design and in-situ application of supporting.%传统的锚杆作用机理大多从锚杆自身的受力状态入手,对于锚杆整体结构与围岩之间相互作用的规律研究较少。通过理论分析、现场实测等手段,从全长锚固预应力树脂锚杆加固围岩的轴向锚固作用、托锚力作用和横向锚固作用来着重分析锚杆、托盘、锚固剂与围岩之间相互作用的规律,以及与围岩长期相互作用过程中锚杆的受力分布特征,并通过现场支护试验校验了全长锚固预应力树脂锚杆的锚固效果。研究所得结论可为全长锚固预应力树脂锚杆的支护设计和现场支护应用提供理论参考。

  9. Novel Meta-Analysis-Derived Type 2 Diabetes Risk Loci Do Not Determine Prediabetic Phenotypes

    OpenAIRE

    Staiger, Harald; Machicao, Fausto; Kantartzis, Konstantinos; Schäfer, Silke A.; Kirchhoff, Kerstin; Guthoff, Martina; Silbernagel, Günther; Stefan, Norbert; Fritsche, Andreas; Häring, Hans-Ulrich

    2008-01-01

    Background Genome-wide association (GWA) studies identified a series of novel type 2 diabetes risk loci. Most of them were subsequently demonstrated to affect insulin secretion of pancreatic β-cells. Very recently, a meta-analysis of GWA data revealed nine additional risk loci with still undefined roles in the pathogenesis of type 2 diabetes. Using our thoroughly phenotyped cohort of subjects at an increased risk for type 2 diabetes, we assessed the association of the nine latest genetic vari...

  10. Mass cytometry analysis shows that a novel memory phenotype B cell is expanded in multiple myeloma

    OpenAIRE

    Hansmann, Leo; Blum, Lisa; Ju, Chia-Hsin; Liedtke, Michaela; Robinson, William H; Davis, Mark M.

    2015-01-01

    It would be very beneficial if the status of cancers could be determined from a blood specimen. However, peripheral blood leukocytes are very heterogeneous between individuals and thus high resolution technologies are likely required. We used cytometry by time-of-flight (CyTOF) and next generation sequencing to ask whether a plasma cell cancer (multiple myeloma) and related pre-cancerous states had any consistent effect on the peripheral blood mononuclear cell phenotypes of patients. Analysis...

  11. A Cladistic Analysis of Phenotype Associations with Haplotypes Inferred from Restriction Endonuclease Mapping. II. the Analysis of Natural Populations

    Science.gov (United States)

    Templeton, A. R.; Sing, C. F.; Kessling, A.; Humphries, S.

    1988-01-01

    Genes that code for products involved in the physiology of a phenotype are logical candidates for explaining interindividual variation in that phenotype. We present a methodology for discovering associations between genetic variation at such candidate loci (assayed through restriction endonuclease mapping) with phenotypic variation at the population level. We confine our analyses to DNA regions in which recombination is very rare. In this case, the genetic variation at the candiate locus can be organized into a cladogram that represents the evolutionary relationships between the observed haplotypes. Any mutation causing a significant phenotypic effect should be imbedded within the same historical structure defined by the cladogram. We showed, in the first paper of this series, how to use the cladogram to define a nested analysis of variance (NANOVA) that was very efficient at detecting and localizing phenotypically important mutations. However, the NANOVA of haplotype effects could only be applied to populations of homozygous genotypes. In this paper, we apply the quantitative genetic concept of average excess to evaluate the phenotypic effect of a haplotype or group of haplotypes stratified and contrasted according to the nested design defined by the cladogram. We also show how a permutational procedure can be used to make statistical inferences about the nested average excess values in populations containing heterozygous as well as homozygous genotypes. We provide two worked examples that investigate associations between genetic variation at or near the Alcohol dehydrogenase (Adh) locus and Adh activity in Drosophila melanogaster, and associations between genetic variation at or near some apolipoprotein loci and various lipid phenotypes in a human population. PMID:3147219

  12. Analysis of mammalian gene function through broad-based phenotypic screens across a consortium of mouse clinics.

    Science.gov (United States)

    Hrabě de Angelis, Martin; Nicholson, George; Selloum, Mohammed; White, Jacqueline K; Morgan, Hugh; Ramirez-Solis, Ramiro; Sorg, Tania; Wells, Sara; Fuchs, Helmut; Fray, Martin; Adams, David J; Adams, Niels C; Adler, Thure; Aguilar-Pimentel, Antonio; Ali-Hadji, Dalila; Amann, Gregory; André, Philippe; Atkins, Sarah; Auburtin, Aurelie; Ayadi, Abdel; Becker, Julien; Becker, Lore; Bedu, Elodie; Bekeredjian, Raffi; Birling, Marie-Christine; Blake, Andrew; Bottomley, Joanna; Bowl, Michael R; Brault, Véronique; Busch, Dirk H; Bussell, James N; Calzada-Wack, Julia; Cater, Heather; Champy, Marie-France; Charles, Philippe; Chevalier, Claire; Chiani, Francesco; Codner, Gemma F; Combe, Roy; Cox, Roger; Dalloneau, Emilie; Dierich, André; Di Fenza, Armida; Doe, Brendan; Duchon, Arnaud; Eickelberg, Oliver; Esapa, Chris T; Fertak, Lahcen El; Feigel, Tanja; Emelyanova, Irina; Estabel, Jeanne; Favor, Jack; Flenniken, Ann; Gambadoro, Alessia; Garrett, Lilian; Gates, Hilary; Gerdin, Anna-Karin; Gkoutos, George; Greenaway, Simon; Glasl, Lisa; Goetz, Patrice; Da Cruz, Isabelle Goncalves; Götz, Alexander; Graw, Jochen; Guimond, Alain; Hans, Wolfgang; Hicks, Geoff; Hölter, Sabine M; Höfler, Heinz; Hancock, John M; Hoehndorf, Robert; Hough, Tertius; Houghton, Richard; Hurt, Anja; Ivandic, Boris; Jacobs, Hughes; Jacquot, Sylvie; Jones, Nora; Karp, Natasha A; Katus, Hugo A; Kitchen, Sharon; Klein-Rodewald, Tanja; Klingenspor, Martin; Klopstock, Thomas; Lalanne, Valerie; Leblanc, Sophie; Lengger, Christoph; le Marchand, Elise; Ludwig, Tonia; Lux, Aline; McKerlie, Colin; Maier, Holger; Mandel, Jean-Louis; Marschall, Susan; Mark, Manuel; Melvin, David G; Meziane, Hamid; Micklich, Kateryna; Mittelhauser, Christophe; Monassier, Laurent; Moulaert, David; Muller, Stéphanie; Naton, Beatrix; Neff, Frauke; Nolan, Patrick M; Nutter, Lauryl M J; Ollert, Markus; Pavlovic, Guillaume; Pellegata, Natalia S; Peter, Emilie; Petit-Demoulière, Benoit; Pickard, Amanda; Podrini, Christine; Potter, Paul; Pouilly, Laurent; Puk, Oliver; Richardson, David; Rousseau, Stephane; Quintanilla-Fend, Leticia; Quwailid, Mohamed M; Racz, Ildiko; Rathkolb, Birgit; Riet, Fabrice; Rossant, Janet; Roux, Michel; Rozman, Jan; Ryder, Edward; Salisbury, Jennifer; Santos, Luis; Schäble, Karl-Heinz; Schiller, Evelyn; Schrewe, Anja; Schulz, Holger; Steinkamp, Ralf; Simon, Michelle; Stewart, Michelle; Stöger, Claudia; Stöger, Tobias; Sun, Minxuan; Sunter, David; Teboul, Lydia; Tilly, Isabelle; Tocchini-Valentini, Glauco P; Tost, Monica; Treise, Irina; Vasseur, Laurent; Velot, Emilie; Vogt-Weisenhorn, Daniela; Wagner, Christelle; Walling, Alison; Wattenhofer-Donze, Marie; Weber, Bruno; Wendling, Olivia; Westerberg, Henrik; Willershäuser, Monja; Wolf, Eckhard; Wolter, Anne; Wood, Joe; Wurst, Wolfgang; Yildirim, Ali Önder; Zeh, Ramona; Zimmer, Andreas; Zimprich, Annemarie; Holmes, Chris; Steel, Karen P; Herault, Yann; Gailus-Durner, Valérie; Mallon, Ann-Marie; Brown, Steve D M

    2015-09-01

    The function of the majority of genes in the mouse and human genomes remains unknown. The mouse embryonic stem cell knockout resource provides a basis for the characterization of relationships between genes and phenotypes. The EUMODIC consortium developed and validated robust methodologies for the broad-based phenotyping of knockouts through a pipeline comprising 20 disease-oriented platforms. We developed new statistical methods for pipeline design and data analysis aimed at detecting reproducible phenotypes with high power. We acquired phenotype data from 449 mutant alleles, representing 320 unique genes, of which half had no previous functional annotation. We captured data from over 27,000 mice, finding that 83% of the mutant lines are phenodeviant, with 65% demonstrating pleiotropy. Surprisingly, we found significant differences in phenotype annotation according to zygosity. New phenotypes were uncovered for many genes with previously unknown function, providing a powerful basis for hypothesis generation and further investigation in diverse systems. PMID:26214591

  13. Whole-Genome Sequencing Analysis Accurately Predicts Antimicrobial Resistance Phenotypes in Campylobacter spp.

    Science.gov (United States)

    Zhao, S; Tyson, G H; Chen, Y; Li, C; Mukherjee, S; Young, S; Lam, C; Folster, J P; Whichard, J M; McDermott, P F

    2016-01-01

    The objectives of this study were to identify antimicrobial resistance genotypes for Campylobacter and to evaluate the correlation between resistance phenotypes and genotypes using in vitro antimicrobial susceptibility testing and whole-genome sequencing (WGS). A total of 114 Campylobacter species isolates (82 C. coli and 32 C. jejuni) obtained from 2000 to 2013 from humans, retail meats, and cecal samples from food production animals in the United States as part of the National Antimicrobial Resistance Monitoring System were selected for study. Resistance phenotypes were determined using broth microdilution of nine antimicrobials. Genomic DNA was sequenced using the Illumina MiSeq platform, and resistance genotypes were identified using assembled WGS sequences through blastx analysis. Eighteen resistance genes, including tet(O), blaOXA-61, catA, lnu(C), aph(2″)-Ib, aph(2″)-Ic, aph(2')-If, aph(2″)-Ig, aph(2″)-Ih, aac(6')-Ie-aph(2″)-Ia, aac(6')-Ie-aph(2″)-If, aac(6')-Im, aadE, sat4, ant(6'), aad9, aph(3')-Ic, and aph(3')-IIIa, and mutations in two housekeeping genes (gyrA and 23S rRNA) were identified. There was a high degree of correlation between phenotypic resistance to a given drug and the presence of one or more corresponding resistance genes. Phenotypic and genotypic correlation was 100% for tetracycline, ciprofloxacin/nalidixic acid, and erythromycin, and correlations ranged from 95.4% to 98.7% for gentamicin, azithromycin, clindamycin, and telithromycin. All isolates were susceptible to florfenicol, and no genes associated with florfenicol resistance were detected. There was a strong correlation (99.2%) between resistance genotypes and phenotypes, suggesting that WGS is a reliable indicator of resistance to the nine antimicrobial agents assayed in this study. WGS has the potential to be a powerful tool for antimicrobial resistance surveillance programs. PMID:26519386

  14. Approximative methods for the stability analysis of anchored liquid storage tanks under earthquake excitation; Naeherungsmethoden zur Stabilitaetsuntersuchung von erdbebenerregten verankerten Fluessigkeitsbehaeltern

    Energy Technology Data Exchange (ETDEWEB)

    Seiler, C.

    2001-07-01

    This doctoral thesis presents approximative methods for the stability analysis of anchored liquid storage tanks under earthquake excitation. By first introducing a quasistatic model well known phenomena of collapse are analysed with little numerical effort and the underlying mechanisms of collapse are explained. Subsequently, a more detailed analysis of the structural behavior in the time domain is obtained by a complete interactive model and by employing a suitable time integration method. In this context, the dynamic stability behavior is calculated by defining a problem oriented criterion. Performing an extensive parameter study the approximative methods are discussed and the results lead to a new empirical design concept which may be implemented in the current draft of Eurocode 8, part 4 for stability verifications. (orig.) [German] In der vorliegenden Arbeit wird das Stabilitaetsverhalten von verankerten Fluessigkeitsbehaeltern unter seismischer Einwirkung mit Hilfe unterschiedlicher Naeherungsmethoden behandelt. Die Einfuehrung eines quasistatischen Ersatzmodells bietet zunaechst die Moeglichkeit, bekannte Versagensphaenomene mit geringem numerischen Aufwand zu berechnen und die zugrundeliegenden Versagensmechanismen zu erklaeren. Zu einer genaueren Analyse des Tragverhaltens im Zeitbereich wird anschliessend ein vollstaendiges Interaktionsmodell in Verbindung mit einem geeigneten Zeitintegrationsverfahren herangezogen. Das dynamische Stabilitaetsverhalten wird dabei mit einem Kriterium beurteilt, das problemorientiert definiert wird. Eine umfangreiche Parameterstudie stellt die vorgestellten Naeherungsverfahren gegenueber und dient als Datenbasis fuer ein neu entwickeltes empirisches Bemessungskonzept, das in die aktuelle Normengebung des EC 8, Teil 4 in bezug auf die erforderlichen Stabilitaetsnachweise aufgenommen werden koennte. (orig.)

  15. 小行星着陆器锚系统及其实验研究%Development and Experimental Analysis of Anchoring System for Asteroid Lander

    Institute of Scientific and Technical Information of China (English)

    赵志军; 赵京东; 刘宏

    2013-01-01

    The lander is easy to rebound and flow away when landing on an asteroid.To solve this problem,an anchoring system which could anchor the lander to the surface of the asteroid is designed.The related characteristics of the asteroid constraining the design of the anchoring system are analyzed.The anchoring system is designed according to the "cord connecting mode" after analyzing the design alternatives of the anchoring system.It consists of anchoring unit,winding unit,unlocking unit,wire unit and electric/control unit.The penetration depth of the conic anchor tip is also studied.The penetrating/anchoring capability and dragging capability under microgravity of the anchoring system are tested.Experiments show that the anchoring system could penetrate/anchor in the frozen medium and drag the lander to the landing slope under microgravity environment.%针对小行星表面着陆器容易反弹及飘走的难题,设计了一种将着陆器锚固在小行星表面的锚系统.基于小行星特点,对锚系统设计方案进行了分析,选择“链式锚固方式”作为本研究的锚系统方案.基于该方案对锚系统进行了设计,其包括锚固单元、缠绕单元、解锁单元、线绳单元及电气控制单元.对锥形锚尖的侵彻深度进行了研究.经过在冻土介质中的侵彻/锚固实验及气浮微重力环境下的拖拽实验,证明该锚系统具有微重力环境下对小行星着陆器进行锚固及拖拽的基本功能.

  16. 玻璃钢锚环承载性能的有限元分析%Finite Element Analysis of Bearing Capacity of Glass Fiber Reinforced Plastics Anchor Ring

    Institute of Scientific and Technical Information of China (English)

    刘建月; 崔小朝; 刘伟婧; 郑亚东

    2016-01-01

    通过 ABAQUS 有限元分析软件建立了连续玻璃纤维缠绕的聚酯树脂基玻璃钢锚环的有限元计算模型,对玻璃钢锚环与金属夹片、钢绞线配合使用的支护系统进行了加载分析。通过改变玻璃钢锚环的半锥角,研究了玻璃钢锚环与夹片的锥角搭配对锚具承载性能的影响。计算分析表明,在300 kN载荷作用下,计算模型中锚环纤维方向承载性能良好;轴对称面内最大主应力集中在锚环与夹片接触面附近,此处小范围基体开裂对锚环承载性能影响不大;锚环对称面内剪应力大面积超出基体强度极限,是影响锚环承载性能的主要因素。当夹片半锥角为7°时,玻璃钢锚环半锥角为6.3°~6.5°能改善锚环的应力分布状态,提高锚具的承载能力。%This paper established a finite element calculation model of continuous glass fiber winding and polyester resin GFRP anchor ring with ABAQUS,which conducted a loading analysis on the supporting system consisting of GFRP anchor ring,metal clip and steel strand.A research was made on the influence on the loading capacity of an-chor ring by changing the match of taper angles of GFRP anchor ring and clip.According to the calculation analy-sis,the anchor ring of the calculation model has a good bearing capacity in fiber direction under the load of 300 kN;in the symmetrical plane,the maximum principal stress is concentrated nearby the contact face between anchor ring and clip,and the crack of resin in small scale has small influence on the anchor ring bearing capacity;in sym-metrical plane,a large area of shearing stress of anchor ring surpassing resin ultimate stress is the main factor which can influence the loading capacity of anchor ring.When the half taper angle of clip is 7°and that of GFRP anchor ring is 6.3°~6.5°,the stress distribution and loading capacity of anchor ring can be well improved.

  17. Phenotypic Analysis Reveals that the 2010 Haiti Cholera Epidemic Is Linked to a Hypervirulent Strain.

    Science.gov (United States)

    Satchell, Karla J F; Jones, Christopher J; Wong, Jennifer; Queen, Jessica; Agarwal, Shivani; Yildiz, Fitnat H

    2016-09-01

    Vibrio cholerae O1 El Tor strains have been responsible for pandemic cholera since 1961. These strains have evolved over time, spreading globally in three separate waves. Wave 3 is caused by altered El Tor (AET) variant strains, which include the strain with the signature ctxB7 allele that was introduced in 2010 into Haiti, where it caused a devastating epidemic. In this study, we used phenotypic analysis to compare an early isolate from the Haiti epidemic to wave 1 El Tor isolates commonly used for research. It is demonstrated that the Haiti isolate has increased production of cholera toxin (CT) and hemolysin, increased motility, and a reduced ability to form biofilms. This strain also outcompetes common wave 1 El Tor isolates for colonization of infant mice, indicating that it has increased virulence. Monitoring of CT production and motility in additional wave 3 isolates revealed that this phenotypic variation likely evolved over time rather than in a single genetic event. Analysis of available whole-genome sequences and phylogenetic analyses suggested that increased virulence arose from positive selection for mutations found in known and putative regulatory genes, including hns and vieA, diguanylate cyclase genes, and genes belonging to the lysR and gntR regulatory families. Overall, the studies presented here revealed that V. cholerae virulence potential can evolve and that the currently prevalent wave 3 AET strains are both phenotypically distinct from and more virulent than many El Tor isolates. PMID:27297393

  18. Exome Sequence Analysis Suggests that Genetic Burden Contributes to Phenotypic Variability and Complex Neuropathy

    Directory of Open Access Journals (Sweden)

    Claudia Gonzaga-Jauregui

    2015-08-01

    Full Text Available Charcot-Marie-Tooth (CMT disease is a clinically and genetically heterogeneous distal symmetric polyneuropathy. Whole-exome sequencing (WES of 40 individuals from 37 unrelated families with CMT-like peripheral neuropathy refractory to molecular diagnosis identified apparent causal mutations in ∼45% (17/37 of families. Three candidate disease genes are proposed, supported by a combination of genetic and in vivo studies. Aggregate analysis of mutation data revealed a significantly increased number of rare variants across 58 neuropathy-associated genes in subjects versus controls, confirmed in a second ethnically discrete neuropathy cohort, suggesting that mutation burden potentially contributes to phenotypic variability. Neuropathy genes shown to have highly penetrant Mendelizing variants (HPMVs and implicated by burden in families were shown to interact genetically in a zebrafish assay exacerbating the phenotype established by the suppression of single genes. Our findings suggest that the combinatorial effect of rare variants contributes to disease burden and variable expressivity.

  19. Proteomic analysis of human norepinephrine transporter complexes reveals associations with protein phosphatase 2A anchoring subunit and 14-3-3 proteins

    International Nuclear Information System (INIS)

    The norepinephrine transporter (NET) terminates noradrenergic signals by clearing released NE at synapses. NET regulation by receptors and intracellular signaling pathways is supported by a growing list of associated proteins including syntaxin1A, protein phosphatase 2A (PP2A) catalytic subunit (PP2A-C), PICK1, and Hic-5. In the present study, we sought evidence for additional partnerships by mass spectrometry-based analysis of proteins co-immunoprecipitated with human NET (hNET) stably expressed in a mouse noradrenergic neuroblastoma cell line. Our initial proteomic analyses reveal multiple peptides derived from hNET, peptides arising from the mouse PP2A anchoring subunit (PP2A-Ar) and peptides derived from 14-3-3 proteins. We verified physical association of NET with PP2A-Ar via co-immunoprecipitation studies using mouse vas deferens extracts and with 14-3-3 via a fusion pull-down approach, implicating specifically the hNET NH2-terminus for interactions. The transporter complexes described likely support mechanisms regulating transporter activity, localization, and trafficking

  20. An integrated analysis of phenotypic selection on insect body size and development time.

    Science.gov (United States)

    Eck, Daniel J; Shaw, Ruth G; Geyer, Charles J; Kingsolver, Joel G

    2015-09-01

    Most studies of phenotypic selection do not estimate selection or fitness surfaces for multiple components of fitness within a unified statistical framework. This makes it difficult or impossible to assess how selection operates on traits through variation in multiple components of fitness. We describe a new generation of aster models that can evaluate phenotypic selection by accounting for timing of life-history transitions and their effect on population growth rate, in addition to survival and reproductive output. We use this approach to estimate selection on body size and development time for a field population of the herbivorous insect, Manduca sexta (Lepidoptera: Sphingidae). Estimated fitness surfaces revealed strong and significant directional selection favoring both larger adult size (via effects on egg counts) and more rapid rates of early larval development (via effects on larval survival). Incorporating the timing of reproduction and its influence on population growth rate into the analysis resulted in larger values for size in early larval development at which fitness is maximized, and weaker selection on size in early larval development. These results illustrate how the interplay of different components of fitness can influence selection on size and development time. This integrated modeling framework can be readily applied to studies of phenotypic selection via multiple fitness components in other systems. PMID:26257167

  1. Factor Analysis Demonstrates a Common Schizoidal Phenotype within Autistic and Schizotypal Tendency: Implications for Neuroscientific Studies.

    Science.gov (United States)

    Ford, Talitha C; Crewther, David P

    2014-01-01

    Behavioral and cognitive dysfunction, particularly social and communication impairments, are shared between autism and schizophrenia spectrum disorders, while evidence for a diametric autism-positive schizophrenia symptom profile is inconsistent. We investigated the shared phenotype at a personality trait level, particularly its resemblance to schizoid personality disorder, as well as differential aspects of the autism-schizophrenia model. Items of the autism spectrum quotient (AQ) and schizotypal personality questionnaire (SPQ) were pseudo-randomly combined, and were completed by 449 (162 male, 287 female) non-clinical participants aged 18-40. A factor analysis revealed three factors; the first represented a shared social disorganization phenotype, the second reflected perceptual oddities specific to schizotypy while the third reflected social rigidity specific to autism. The AQ and SPQ were strongly correlated with Factor 1 (AQ: r = 0.75, p schizotypal tendency, which reflects the schizoid phenotype. Discriminating and independent dimensions of schizotypal and autistic tendency exist in Factors 2 and 3, respectively. Current diagnostic protocols could result in different diagnoses depending on the instrument used, suggesting the need for neuromarkers that objectively differentiate autistic and schizotypal traits and resolve the question of commonality versus co-morbidity.

  2. Epstein on Anchors and Grounds

    Directory of Open Access Journals (Sweden)

    Guala Francesco

    2016-03-01

    Full Text Available The distinction between anchors and grounds is one of the most innovative contributions of The Ant Trap. In this commentary I will argue that the distinction suffers from an ambiguity between tokens and types. This leads Epstein to endorse pluralism about anchors and grounds, a position that is not justified in the book and to which there are plausible alternatives.

  3. Factor analysis demonstrates a common schizoidal phenotype within autistic and schizotypal tendency: Implications for neuroscientific studies

    Directory of Open Access Journals (Sweden)

    Talitha Caitlyn Ford

    2014-08-01

    Full Text Available Behavioural and cognitive dysfunction, particularly social and communication impairments are shared between autism and schizophrenia spectrum disorders, while evidence for a diametric autism-positive schizophrenia symptom profile is inconsistent. We investigated the shared phenotype at a personality trait level, particularly its resemblance to schizoid personality disorder, as well as differential aspects of the autism-schizophrenia model.Items of the Autism Spectrum Quotient (AQ and Schizotypal Personality Questionnaire (SPQ were pseudo-randomly combined, and were completed by 449 (162 male, 287 female non-clinical participants aged 18-40. A Factor Analysis revealed three factors; the first represented a shared social disorganization phenotype, the second reflected perceptual oddities specific to schizotypy while the third reflected social rigidity specific to autism. The AQ and SPQ were strongly correlated with Factor 1 (AQ: r=.75, p<.001; SPQ: r=.96, p<.001, SPQ score was correlated with Factor 2 (r=.51, p<.001, particularly in Cognitive-Perceptual features (r=.66, p<.001, and AQ score was strongly correlated with Factor 3 (r=.76, p<.001. Furthermore, there was no relationship between Factor 1 and Factor 2.Thus, there is robust evidence for a shared social disorganization phenotype in autistic and schizotypal tendency, which reflects the schizoid phenotype. Discriminating and independent dimensions of schizotypal and autistic tendency exist in Factors 2 and 3 respectively. Current diagnostic protocols could result in different diagnoses depending on the instrument used, suggesting the need for neuromarkers that objectively differentiate autistic and schizotypal traits and resolve the question of commonality versus comorbidity.

  4. Nif- phenotype of Azotobacter vinelandii UW97. Characterization and mutational analysis.

    Science.gov (United States)

    Pulakat, L; Hausman, B S; Lei, S; Gavini, N

    1996-01-26

    We have identified the molecular basis for the nitrogenase negative phenotype exhibited by Azotobacter vinelandii UW97. This strain was initially isolated following nitrosoguanidine mutagenesis. Recently, it was shown that this strain lacks the Fe protein activity, which results in the synthesis of a FeMo cofactor-deficient apodinitrogenase. Activation of this apodinitrogenase requires the addition of both MgATP and wild-type Fe protein to the crude extracts made by A. vinelandii UW97 (Allen, R.M., Homer, M.J., Chatterjee R., Ludden, P.W., Roberts, G.P., and Shah, V.K. (1993) J. Biol. Chem. 268 23670-23674). Earlier, we proposed the sequence of events in the MoFe protein assembly based on the biochemical and spectroscopic analysis of the purified apodinitrogenase from A. vinelandii DJ54 (Gavini, N., Ma, L., Watt, G., and Burgess, B.K. (1994) Biochemistry 33, 11842-11849). Taken together, these results imply that the assembly process of apodinitrogenase is arrested at the same step in both of these strains. Since A. vinelandii DJ54 is a delta nifH strain, this strain is not useful in identifying the features of the Fe protein involved in the MoFe protein assembly. Here, we report a systematic analysis of an A. vinelandii UW97 mutant and show that, unlike A. vinelandii DJ54, the nifH gene of A. vinelandii UW97 has no deletion in either coding sequence or the surrounding sequences. The specific mutation responsible for the Nif- phenotype of A. vinelandii UW97 is the substitution of a non-conserved serine at position 44 of the Fe protein by a phenylalanine as shown by DNA sequencing. Furthermore, oligonucleotide site-directed mutagenesis was employed to confirm that the Nif- phenotype in A. vinelandii UW97 is exclusively due to the substitution of the Fe protein residue serine 44 by phenylalanine. By contrast, replacing Ser-44 with alanine did not affect the Nif phenotype of A. vinelandii. Therefore, it seems that the Nif- phenotype of A. vinelandii UW97 is caused by a

  5. PHENOTYPIC ANALYSIS OF OsTPKb LOSS OF FUNCTION MUTANT RICE LINES

    Directory of Open Access Journals (Sweden)

    Isayenkov S. V.

    2015-08-01

    Full Text Available The results of screen and analysis of two OsTPKb rice mutant lines were described. The phenotypes and growth rate level of homozygous mutant plants of both rice lines were estimated. The electron microscopy of aleurone layer from forming seeds was performed. The OsTPKb mutant plants demonstrate lower growth rate in comparison with wild type plants. The loss of function OsTPKb mutations invariably led to (semisterile rice plants. The functional disruption of OsTPKb channel has negative impact on plant growth and development. It might completely change the cell morphology of aleurone layer.

  6. Phenotype characterization and DSPP mutational analysis of three Brazilian dentinogenesis imperfecta type II families.

    Science.gov (United States)

    Acevedo, A C; Santos, L J S; Paula, L M; Dong, J; MacDougall, M

    2009-01-01

    The aim of this study was to perform phenotype analysis and dentin sialophosphoprotein (DSPP) mutational analysis on 3 Brazilian families diagnosed with dentinogenesis imperfecta type II (DGI-II) attending the Dental Anomalies Clinic in Brasilia, Brazil. Physical and oral examinations, as well as radiographic and histopathological analyses, were performed on 28 affected and unaffected individuals. Clinical, radiographic and histopathological analyses confirmed the diagnosis of DGI-II in 19 individuals. Pulp stones were observed in ground sections of several teeth in 2 families, suggesting that obliteration of pulp chambers and root canals results from the growth of these nodular structures. Mutational DSPP gene analysis of representative affected family members revealed 7 various non-disease-causing alterations in exons 1-4 within the dentin sialoprotein domain. Further longitudinal studies are necessary to elucidate the progression of pulpal obliteration in the DGI-II patients studied as well as the molecular basis of their disease.

  7. Comparative analysis of two phenotypically-similar but genomically-distinct Burkholderia cenocepacia-specific bacteriophages

    Directory of Open Access Journals (Sweden)

    Lynch Karlene H

    2012-06-01

    Full Text Available Abstract Background Genomic analysis of bacteriophages infecting the Burkholderia cepacia complex (BCC is an important preliminary step in the development of a phage therapy protocol for these opportunistic pathogens. The objective of this study was to characterize KL1 (vB_BceS_KL1 and AH2 (vB_BceS_AH2, two novel Burkholderia cenocepacia-specific siphoviruses isolated from environmental samples. Results KL1 and AH2 exhibit several unique phenotypic similarities: they infect the same B. cenocepacia strains, they require prolonged incubation at 30°C for the formation of plaques at low titres, and they do not form plaques at similar titres following incubation at 37°C. However, despite these similarities, we have determined using whole-genome pyrosequencing that these phages show minimal relatedness to one another. The KL1 genome is 42,832 base pairs (bp in length and is most closely related to Pseudomonas phage 73 (PA73. In contrast, the AH2 genome is 58,065 bp in length and is most closely related to Burkholderia phage BcepNazgul. Using both BLASTP and HHpred analysis, we have identified and analyzed the putative virion morphogenesis, lysis, DNA binding, and MazG proteins of these two phages. Notably, MazG homologs identified in cyanophages have been predicted to facilitate infection of stationary phase cells and may contribute to the unique plaque phenotype of KL1 and AH2. Conclusions The nearly indistinguishable phenotypes but distinct genomes of KL1 and AH2 provide further evidence of both vast diversity and convergent evolution in the BCC-specific phage population.

  8. Flow cytometric analysis of Mixed phenotype acute leukemia: Experience from a tertiary oncology center

    Directory of Open Access Journals (Sweden)

    Renu Sukumaran

    2015-01-01

    Full Text Available Introduction: Mixed phenotype acute leukemia (MPAL is a rare subset of acute leukemia where the blasts exhibit lineage specific antigens of more than one lineage. Flow cytometric immunophenotyping is essential for the diagnosis of MPAL and the accurate diagnosis highly depends on the panel of markers used. The precise incidence of MPAL is uncertain as various institutions use different combinations of antibodies to assign the blasts to a particular lineage. Aim: The aim was to study the immunoprofile of acute leukemia including aberrant antigen expressions and to study the incidence, clinical features, laboratory findings, and immunophenotype of MPAL in our institution. Materials and Methods: All cases of acute leukemias in which flow cytometric analysis during 1-year period from July 2012 to July 2013 were included in this study. Results: During the study period, flow cytometric analysis of 506 cases was performed. B lymphoblastic leukemia was the most common subtype of acute leukemia. CD13 was the most common aberrant antigen expression in acute lymphoblastic leukemia and CD7 was the most common aberrant antigen expression in acute myeloid leukemia. A diagnosis of MPAL was made in 15 cases, which accounted for 2.96% of all leukemias. 9 cases were diagnosed as T/myeloid, 5 cases as B/myeloid and 1 case as B/T. Conclusion: Mixed phenotype acute leukemia is a rare subset of acute leukemia. Flow cytometry is critical in establishing a diagnosis of MPAL. The panel of antibodies used is important in the identification of the "mixed" phenotype. Cytoplasmic markers (cytoplasmic MPO, cytoplasmic 79a, cytoplasmic 22 and cytoplasmic CD3 should be included in the primary flow cytometric panel.

  9. Underestimated effect sizes in GWAS: fundamental limitations of single SNP analysis for dichotomous phenotypes.

    Directory of Open Access Journals (Sweden)

    Sven Stringer

    Full Text Available Complex diseases are often highly heritable. However, for many complex traits only a small proportion of the heritability can be explained by observed genetic variants in traditional genome-wide association (GWA studies. Moreover, for some of those traits few significant SNPs have been identified. Single SNP association methods test for association at a single SNP, ignoring the effect of other SNPs. We show using a simple multi-locus odds model of complex disease that moderate to large effect sizes of causal variants may be estimated as relatively small effect sizes in single SNP association testing. This underestimation effect is most severe for diseases influenced by numerous risk variants. We relate the underestimation effect to the concept of non-collapsibility found in the statistics literature. As described, continuous phenotypes generated with linear genetic models are not affected by this underestimation effect. Since many GWA studies apply single SNP analysis to dichotomous phenotypes, previously reported results potentially underestimate true effect sizes, thereby impeding identification of true effect SNPs. Therefore, when a multi-locus model of disease risk is assumed, a multi SNP analysis may be more appropriate.

  10. Recognition of the Cornelia de Lange syndrome phenotype with facial dysmorphology novel analysis.

    Science.gov (United States)

    Basel-Vanagaite, L; Wolf, L; Orin, M; Larizza, L; Gervasini, C; Krantz, I D; Deardoff, M A

    2016-05-01

    Facial analysis systems are becoming available to healthcare providers to aid in the recognition of dysmorphic phenotypes associated with a multitude of genetic syndromes. These technologies automatically detect facial points and extract various measurements from images to recognize dysmorphic features and evaluate similarities to known facial patterns (gestalts). To evaluate such systems' usefulness for supporting the clinical practice of healthcare professionals, the recognition accuracy of the Cornelia de Lange syndrome (CdLS) phenotype was examined with FDNA's automated facial dysmorphology novel analysis (FDNA) technology. In the first experiment, 2D facial images of CdLS patients with either an NIPBL or SMC1A gene mutation as well as non-CdLS patients which were assessed by dysmorphologists in a previous study were evaluated by the FDNA technology; the average detection rate of experts was 77% while the system's detection rate was 87%. In the second study, when a new set of NIPBL, SMC1A and non-CdLS patient photos was evaluated, the detection rate increased to 94%. The results from both studies indicated that the system's detection rate was comparable to that of dysmorphology experts. Therefore, utilizing such technologies may be a useful tool in a clinical setting. PMID:26663098

  11. Inference of tumor evolution during chemotherapy by computational modeling and in situ analysis of genetic and phenotypic cellular diversity

    International Nuclear Information System (INIS)

    Cancer therapy exerts a strong selection pressure that shapes tumor evolution, yet our knowledge of how tumors change during treatment is limited. Here, we report the analysis of cellular heterogeneity for genetic and phenotypic features and their spatial distribution in breast tumors pre- and post-neoadjuvant chemotherapy. We found that intratumor genetic diversity was tumor-subtype specific, and it did not change during treatment in tumors with partial or no response. However, lower pretreatment genetic diversity was significantly associated with pathologic complete response. In contrast, phenotypic diversity was different between pre- and post-treatment samples. We also observed significant changes in the spatial distribution of cells with distinct genetic and phenotypic features. We used these experimental data to develop a stochastic computational model to infer tumor growth patterns and evolutionary dynamics. Our results highlight the importance of integrated analysis of genotypes and phenotypes of single cells in intact tissues to predict tumor evolution

  12. Microfluidic isolation of leukocytes from whole blood for phenotype and gene expression analysis.

    Science.gov (United States)

    Sethu, Palaniappan; Moldawer, Lyle L; Mindrinos, Michael N; Scumpia, Philip O; Tannahill, Cynthia L; Wilhelmy, Julie; Efron, Philip A; Brownstein, Bernard H; Tompkins, Ronald G; Toner, Mehmet

    2006-08-01

    Technologies that enable the isolation of cell subtypes from small samples of complex populations will greatly facilitate the implementation of proteomics and genomics to human diseases. Transcriptome analysis of blood requires the depletion of contaminating erythrocytes. We report an automated microfluidic device to rapidly deplete erythrocytes from whole blood via deionized water lysis and to collect enriched leukocytes for phenotype and genomic analyses. Starting with blood from healthy subjects, we demonstrate the utility of this microfluidic cassette and lysis protocol to prepare unstimulated leukocytes, and leukocytes stimulated ex vivo with Staphylococcal enterotoxin B, which mimics some of the cellular effects seen in patients with severe bacterial infections. Microarrays are used to assess the global gene expression response to enterotoxin B. The results demonstrate that this system can isolate unactivated leukocytes from small blood samples without any significant loss, which permits more information to be obtained from subsequent analysis, and will be readily applicable to clinical settings.

  13. Evaluation of phenotypic stability of cassava clones by AMMI analysis in northwestern Paraná state

    Directory of Open Access Journals (Sweden)

    Marcus Vinícius Kvitschal

    2006-01-01

    Full Text Available High yield stability and adaptability of storage root are highly desirable attributes of cassava clones. Theobjective of this study was therefore to evaluate the effect of the genotype x environment interaction (G x E and the stability ofcassava clones developed at IAC. A subset of eight cassava genotypes was chosen in trials of storage root yield, arranged ina randomized complete block design with four replications, in two counties (Araruna and Maringá, in the northwesternregion of Paraná State, over five growing seasons (1997-2001. The G x E interaction was evaluated by joint varianceanalysis and stability and adaptability by AMMI analysis. The G x E interaction was significant (P<0.05 for storage rootyield. Results indicated AMMI analysis as an efficient tool for the evaluation of phenotypic adaptability and stability of cassavaclones and IAC 190 as the most promising clone.

  14. Stress distribution of inlay-anchored adhesive fixed partial dentures: a finite element analysis of the influence of restorative materials and abutment preparation design

    OpenAIRE

    Magne, Pascal; Perakis, Nikolaos; Belser, Urs Christophe; Krejci, Ivo

    2002-01-01

    Indirect composite or ceramic fixed partial dentures (FPDs) have become an alternative to conventional metal-ceramic adhesive fixed partial dentures (AFPDs). Little information about the adequate restorative material and tooth preparation design for inlay-anchored AFPDs is available to the clinician.

  15. Bone Anchored Hearing Treatment Procedure

    Medline Plus

    Full Text Available ... skin to allow removal of some of the soft tissue where the screwlike fixture will be anchored. The ... screen, acting as a hinge. Beneath that the soft tissue consisting of fat and some muscle is removed. ...

  16. Bone Anchored Hearing Treatment Procedure

    Medline Plus

    Full Text Available ... The Baha system consists of a bone-anchored titanium fixture that is implanted in the mastoid bone, ... the -- great. I'm going to grab the titanium implant. And what I want you to notice ...

  17. Anchoring: A "Cure" for Epy.

    Science.gov (United States)

    Thalgott, Mary R.

    1986-01-01

    Anchoring, a neurolinguistic programing technique, was successful in helping a sixth grader with learning disabilities reduce his anxiety reaction to math tasks. Other uses for the approach are noted and guidelines offered. (CL)

  18. Relationships of Campanian olive cultivars: comparative analysis of molecular and phenotypic data.

    Science.gov (United States)

    Corrado, Giandomenico; La Mura, Maurizio; Ambrosino, Orsola; Pugliano, Giuseppe; Varricchio, Paola; Rao, Rosa

    2009-08-01

    Estimation of the genetic relatedness of traditional olive cultivars with genetic markers and phenotypic data enables progress in plant breeding, management of genetic resources, and protection of both breeders' rights and certified premium products. We used amplified fragment length polymorphisms (AFLPs), simple sequence repeats (SSRs), and quantitative and qualitative morphological traits, including characteristics recommended for variety registration, to study genetic diversity and relationships in the olive at different levels. The 14 varieties analyzed, which are used for the production of Protected Denomination of Origin extra-virgin olive oil, represent the most important cultivars in the Campania region of Italy and typify a regional diversity characteristic of traditional olive cultivation. The genetic distances obtained with the two DNA marker systems were significantly correlated, as were those obtained by quantitative and qualitative traits. A lower but significant correlation was also observed between distances based on molecular markers and quantitative traits, but qualitative traits, even if sampled in high numbers, failed to describe the pattern of molecular similarity. Our data imply that the type and the number of phenotypic traits scored can greatly influence the outcome of the analysis, and care should be taken when qualitative and quantitative data are combined. Furthermore, the data indicate that the two molecular marker systems are useful for investigating genetic relationships, but they may also be used to complement and assist the traditional registration of varieties. We propose that since the information provided by molecular and morphological marker systems in olive is different, they should serve different purposes. PMID:19767899

  19. Mass cytometry analysis shows that a novel memory phenotype B cell is expanded in multiple myeloma

    Science.gov (United States)

    Hansmann, Leo; Blum, Lisa; Ju, Chia-Hsin; Liedtke, Michaela; Robinson, William H.; Davis, Mark M.

    2015-01-01

    It would be very beneficial if the status of cancers could be determined from a blood specimen. However, peripheral blood leukocytes are very heterogeneous between individuals and thus high resolution technologies are likely required. We used cytometry by time-of-flight (CyTOF) and next generation sequencing to ask whether a plasma cell cancer (multiple myeloma) and related pre-cancerous states had any consistent effect on the peripheral blood mononuclear cell phenotypes of patients. Analysis of peripheral blood samples from 13 cancer patients, 9 pre-cancer patients, and 9 healthy individuals revealed significant differences in the frequencies of the T, B, and natural killer cell compartments. Most strikingly, we identified a novel B-cell population that normally accounts for 4.0±0.7% (mean±SD) of total B cells and is up to 13-fold expanded in multiple myeloma patients with active disease. This population expressed markers previously associated with both memory (CD27+) and naïve (CD24loCD38+) phenotypes. Single-cell immunoglobulin gene sequencing showed polyclonality, indicating that these cells are not precursors to the myeloma, and somatic mutations, a characteristic of memory cells. SYK, ERK, and p38 phosphorylation responses, and the fact that most of these cells expressed isotypes other than IgM or IgD, confirmed the memory character of this population, defining it as a novel type of memory B cells. PMID:25711758

  20. Relationships of Campanian olive cultivars: comparative analysis of molecular and phenotypic data.

    Science.gov (United States)

    Corrado, Giandomenico; La Mura, Maurizio; Ambrosino, Orsola; Pugliano, Giuseppe; Varricchio, Paola; Rao, Rosa

    2009-08-01

    Estimation of the genetic relatedness of traditional olive cultivars with genetic markers and phenotypic data enables progress in plant breeding, management of genetic resources, and protection of both breeders' rights and certified premium products. We used amplified fragment length polymorphisms (AFLPs), simple sequence repeats (SSRs), and quantitative and qualitative morphological traits, including characteristics recommended for variety registration, to study genetic diversity and relationships in the olive at different levels. The 14 varieties analyzed, which are used for the production of Protected Denomination of Origin extra-virgin olive oil, represent the most important cultivars in the Campania region of Italy and typify a regional diversity characteristic of traditional olive cultivation. The genetic distances obtained with the two DNA marker systems were significantly correlated, as were those obtained by quantitative and qualitative traits. A lower but significant correlation was also observed between distances based on molecular markers and quantitative traits, but qualitative traits, even if sampled in high numbers, failed to describe the pattern of molecular similarity. Our data imply that the type and the number of phenotypic traits scored can greatly influence the outcome of the analysis, and care should be taken when qualitative and quantitative data are combined. Furthermore, the data indicate that the two molecular marker systems are useful for investigating genetic relationships, but they may also be used to complement and assist the traditional registration of varieties. We propose that since the information provided by molecular and morphological marker systems in olive is different, they should serve different purposes.

  1. Analysis of root growth from a phenotyping data set using a density-based model.

    Science.gov (United States)

    Kalogiros, Dimitris I; Adu, Michael O; White, Philip J; Broadley, Martin R; Draye, Xavier; Ptashnyk, Mariya; Bengough, A Glyn; Dupuy, Lionel X

    2016-02-01

    Major research efforts are targeting the improved performance of root systems for more efficient use of water and nutrients by crops. However, characterizing root system architecture (RSA) is challenging, because roots are difficult objects to observe and analyse. A model-based analysis of RSA traits from phenotyping image data is presented. The model can successfully back-calculate growth parameters without the need to measure individual roots. The mathematical model uses partial differential equations to describe root system development. Methods based on kernel estimators were used to quantify root density distributions from experimental image data, and different optimization approaches to parameterize the model were tested. The model was tested on root images of a set of 89 Brassica rapa L. individuals of the same genotype grown for 14 d after sowing on blue filter paper. Optimized root growth parameters enabled the final (modelled) length of the main root axes to be matched within 1% of their mean values observed in experiments. Parameterized values for elongation rates were within ±4% of the values measured directly on images. Future work should investigate the time dependency of growth parameters using time-lapse image data. The approach is a potentially powerful quantitative technique for identifying crop genotypes with more efficient root systems, using (even incomplete) data from high-throughput phenotyping systems. PMID:26880747

  2. Evaluation of the stability of anchor-reinforced slopes

    OpenAIRE

    Lee, CF; Zhu, DY; Chan, DH; Jiang, HD

    2005-01-01

    The conventional methods of slices are commonly used for the analysis of slope stability. When anchor loads are involved, they are often treated as point loads, which may lead to abrupt changes in the normal stress distribution on the potential slip surface. As such abrupt changes are not reasonable and do not reflect reality in the field, an alternative approach based on the limit equilibrium principle is proposed for the evaluation of the stability of anchor-reinforced slopes. With this app...

  3. 扩孔锚杆在软土基坑中的应用实例分析%Application Example Analysis on Broaching Anchor Rod in Soft Soil Foundation Pit

    Institute of Scientific and Technical Information of China (English)

    王曾辉

    2012-01-01

    为了表明扩孔锚杆在软土基坑工程中的应用价值,文章对福建沿海地区的一个软土基坑工程实例进行了分析。结果表明,扩孔锚杆不仅显著提高了其抗拉承载力,而且施工速度快,有利于基坑土方的开挖。因此,扩孔锚杆在施工工期短或不适合布置内支撑的基坑支护工程中具有十分广阔的应用前景。%In order to show the value of the broaching anchor rod in the soft soil foundation pit, The article has carried on the analysis to a Fujian coastal area soft soil foundation pit example. The results show that the broaching anchor rod is not only significantly improve its tension strength, and faster construction, helping earth excavation. Therefore, the broaching anchor rod in the soft soil foundation pit construction which has short construction period, or is not suitable for placement support project has a very broad application prospects.

  4. 76 FR 30301 - Commercial Acquisition; Anchor Tenancy

    Science.gov (United States)

    2011-05-25

    ... SPACE ADMINISTRATION 48 CFR Part 1812 RIN 2700-AD64 Commercial Acquisition; Anchor Tenancy AGENCY... multi-year anchor tenancy contracts for commercial space goods or services. Anchor Tenancy means ``an.... Background NASA's FAR Supplement currently includes an incorrect statement that anchor tenancy contracts...

  5. Family-Based Rare Variant Association Analysis: A Fast and Efficient Method of Multivariate Phenotype Association Analysis.

    Science.gov (United States)

    Wang, Longfei; Lee, Sungyoung; Gim, Jungsoo; Qiao, Dandi; Cho, Michael; Elston, Robert C; Silverman, Edwin K; Won, Sungho

    2016-09-01

    Family-based designs have been repeatedly shown to be powerful in detecting the significant rare variants associated with human diseases. Furthermore, human diseases are often defined by the outcomes of multiple phenotypes, and thus we expect multivariate family-based analyses may be very efficient in detecting associations with rare variants. However, few statistical methods implementing this strategy have been developed for family-based designs. In this report, we describe one such implementation: the multivariate family-based rare variant association tool (mFARVAT). mFARVAT is a quasi-likelihood-based score test for rare variant association analysis with multiple phenotypes, and tests both homogeneous and heterogeneous effects of each variant on multiple phenotypes. Simulation results show that the proposed method is generally robust and efficient for various disease models, and we identify some promising candidate genes associated with chronic obstructive pulmonary disease. The software of mFARVAT is freely available at http://healthstat.snu.ac.kr/software/mfarvat/, implemented in C++ and supported on Linux and MS Windows.

  6. Family-Based Rare Variant Association Analysis: A Fast and Efficient Method of Multivariate Phenotype Association Analysis.

    Science.gov (United States)

    Wang, Longfei; Lee, Sungyoung; Gim, Jungsoo; Qiao, Dandi; Cho, Michael; Elston, Robert C; Silverman, Edwin K; Won, Sungho

    2016-09-01

    Family-based designs have been repeatedly shown to be powerful in detecting the significant rare variants associated with human diseases. Furthermore, human diseases are often defined by the outcomes of multiple phenotypes, and thus we expect multivariate family-based analyses may be very efficient in detecting associations with rare variants. However, few statistical methods implementing this strategy have been developed for family-based designs. In this report, we describe one such implementation: the multivariate family-based rare variant association tool (mFARVAT). mFARVAT is a quasi-likelihood-based score test for rare variant association analysis with multiple phenotypes, and tests both homogeneous and heterogeneous effects of each variant on multiple phenotypes. Simulation results show that the proposed method is generally robust and efficient for various disease models, and we identify some promising candidate genes associated with chronic obstructive pulmonary disease. The software of mFARVAT is freely available at http://healthstat.snu.ac.kr/software/mfarvat/, implemented in C++ and supported on Linux and MS Windows. PMID:27312886

  7. Association analysis of frost tolerance in rye using candidate genes and phenotypic data from controlled, semi-controlled, and field phenotyping platforms

    Directory of Open Access Journals (Sweden)

    Li Yongle

    2011-10-01

    Full Text Available Abstract Background Frost is an important abiotic stress that limits cereal production in the temperate zone. As the most frost tolerant small grain cereal, rye (Secale cereale L. is an ideal cereal model for investigating the genetic basis of frost tolerance (FT, a complex trait with polygenic inheritance. Using 201 genotypes from five Eastern and Middle European winter rye populations, this study reports a multi-platform candidate gene-based association analysis in rye using 161 single nucleotide polymorphisms (SNPs and nine insertion-deletion (Indel polymorphisms previously identified from twelve candidate genes with a putative role in the frost responsive network. Results Phenotypic data analyses of FT in three different phenotyping platforms, controlled, semi-controlled and field, revealed significant genetic variations in the plant material under study. Statistically significant (P ScCbf15 and one in ScCbf12, all leading to amino acid exchanges, were significantly associated with FT over all three phenotyping platforms. Distribution of SNP effect sizes expressed as percentage of the genetic variance explained by individual SNPs was highly skewed towards zero with a few SNPs obtaining large effects. Two-way epistasis was found between 14 pairs of candidate genes. Relatively low to medium empirical correlations of SNP-FT associations were observed across the three platforms underlining the need for multi-level experimentation for dissecting complex associations between genotypes and FT in rye. Conclusions Candidate gene based-association studies are a powerful tool for investigating the genetic basis of FT in rye. Results of this study support the findings of bi-parental linkage mapping and expression studies that the Cbf gene family plays an essential role in FT.

  8. Embedded Figures Test Performance in the Broader Autism Phenotype: A Meta-analysis.

    Science.gov (United States)

    Cribb, Serena J; Olaithe, Michelle; Di Lorenzo, Renata; Dunlop, Patrick D; Maybery, Murray T

    2016-09-01

    People with autism show superior performance to controls on the Embedded Figures Test (EFT). However, studies examining the relationship between autistic-like traits and EFT performance in neurotypical individuals have yielded inconsistent findings. To examine the inconsistency, a meta-analysis was conducted of studies that (a) compared high and low Autism-Spectrum Quotient (AQ) groups, and (b) treated AQ as a continuous variable. Outcomes are consistent with superior visual search forming part of the broader autism phenotype, but in existing literature, this is evident only when comparing extreme groups. Reanalysis of data from previous studies suggests findings are unlikely to be driven by a small number of high scorers. Monte Carlo simulations are used to illustrate the effect of methodological differences on results. PMID:27312717

  9. Anchor Plates in Two-Layered Cohesion Less Soils

    Directory of Open Access Journals (Sweden)

    Hamed Niroumand

    2010-01-01

    Full Text Available Problem statement: During the past few years a great number of experimental model and numerical analysis results on the uplift resistance of anchor plate embedded in homogeneous cohesion less soil has been reported by many researchers. A review of related literature shows that not much research has been done to analyze the performance of anchor plates in layered soils a problem, which is often encountered by the professional engineers in the field. Approach: This study presented the performance of the anchor plates in the cohesion less soil by different researchers. It was based on different previous researches, from the earliest till the most recent ones. The main aim of this research was focused on the prediction of the anchor plates behavior and the force in the layered cohesion less soils. Few laboratory studies were conducted to investigate the uplift capacity behavior of cohesion less soil by previous researchers. Results: The experimental and numerical investigation included uplift test on cohesion less soil by last researchers. The embedment ratio and the effect of density on uplift response were evaluated. This analysis was investigated experimentally and numerically behavior of anchor plates buried in two layered cohesion less soil. Although earlier researchers developed experimentally expressions to estimate the uplift capacity of irregular anchor plates in layered cohesion less soils. Conclusion: The study observed that the ultimate uplift capacity is dependent on the relative strength of the two layers, the depth ratio of embedment and the upper layer thickness ratio.

  10. Finite element analysis on pile anchor support deep foundation ditch%桩锚支护深基坑的有限元分析

    Institute of Scientific and Technical Information of China (English)

    童宏纲; 曹剑波

    2009-01-01

    运用有限元强度折减法对深圳某深基坑开挖进行了有限元数值模拟,研究了基坑开挖后稳定性系数、变形与单桩、抗滑桩结合不同排数锚索支护方案的关系,探讨了桩锚支护时不同锚索预应力与稳定性系数、变形和桩身内力的关系,从而确定基坑边坡的最优设计方案.%The paper makes finite numerical simulation on a deep ditch excavation in Shenzhen by using strength reduction FEM, it analyzes stability of the foundation, and relationship between deformation and combining of single pile and anti-slide pile with different anchor number supporting schemes, it discusses relationship between prestress and stability of different anchors, as well as deformation and internal force of the pile when using the pile anchor supporting, so as to make the best designing scheme of foundation slide slope.

  11. Decoding Cytoskeleton-Anchored and Non-Anchored Receptors from Single-Cell Adhesion Force Data.

    Science.gov (United States)

    Sariisik, Ediz; Popov, Cvetan; Müller, Jochen P; Docheva, Denitsa; Clausen-Schaumann, Hauke; Benoit, Martin

    2015-10-01

    Complementary to parameters established for cell-adhesion force curve analysis, we evaluated the slope before a force step together with the distance from the surface at which the step occurs and visualized the result in a two-dimensional density plot. This new tool allows detachment steps of long membrane tethers to be distinguished from shorter jumplike force steps, which are typical for cytoskeleton-anchored bonds. A prostate cancer cell line (PC3) immobilized on an atomic-force-microscopy sensor interacted with three different substrates: collagen-I (Col-I), bovine serum albumin, and a monolayer of bone marrow-derived stem cells (SCP1). To address PC3 cells' predominant Col-I binding molecules, an antibody-blocking β1-integrin was used. Untreated PC3 cells on Col-I or SCP1 cells, which express Col-I, predominantly showed jumps in their force curves, while PC3 cells on bovine-serum-albumin- and antibody-treated PC3 cells showed long membrane tethers. The probability density plots thus revealed that β1-integrin-specific interactions are predominately anchored to the cytoskeleton, while the nonspecific interactions are mainly membrane-anchored. Experiments with latrunculin-A-treated PC3 cells corroborated these observations. The plots thus reveal details of the anchoring of bonds to the cell and provide a better understanding of receptor-ligand interactions. PMID:26445433

  12. Analysis of CYP1B1 in pediatric and adult glaucoma and other ocular phenotypes

    Science.gov (United States)

    Reis, Linda M.; Tyler, Rebecca C.; Weh, Eric; Hendee, Kathryn E.; Kariminejad, Ariana; Abdul-Rahman, Omar; Ben-Omran, Tawfeg; Manning, Melanie A.; McCarty, Catherine A.; Kitchner, Terrie E.; Costakos, Deborah

    2016-01-01

    Purpose The CYP1B1 gene encodes an enzyme that is a member of the cytochrome P450 superfamily. Mutations in CYP1B1 have been mainly reported in recessive pediatric ocular phenotypes, such as primary congenital glaucoma (PCG) and congenital glaucoma with anterior segment dysgenesis (CG with ASD), with some likely pathogenic variants also identified in families affected with adult-onset primary open angle glaucoma (POAG). Methods We examined CYP1B1 in 158 pediatric patients affected with PCG (eight), CG with ASD (22), CG with other developmental ocular disorders (11), juvenile glaucoma with or without additional ocular anomalies (26), and ASD or other developmental ocular conditions without glaucoma (91); in addition, a large cohort of adult patients with POAG (193) and POAG-negative controls (288) was examined. Results Recessive pathogenic variants in CYP1B1 were identified in two PCG pedigrees, three cases with CG and ASD, and two families with CG and other ocular defects, such as sclerocornea in one patient and microphthalmia in another individual; neither sclerocornea nor microphthalmia has been previously associated with CYP1B1. Most of the identified causative mutations are new occurrences of previously reported pathogenic alleles with two novel variants identified: a c.1325delC, p.(Pro442Glnfs*15) frameshift allele in a family with PCG and a c.157G>A, p.(Gly53Ser) variant identified in a proband with CG, Peters anomaly, and microphthalmia. Analysis of the family history in the CYP1B1-positive families revealed POAG in confirmed or presumed heterozygous relatives in one family with PCG and two families with ASD/CG; POAG was associated with the c.1064_1076del, p.(Arg355Hisfs*69) allele in two of these pedigrees. Screening of an unrelated POAG cohort identified the same c.1064_1076del heterozygous allele in one individual with sporadic POAG but not in age- and ethnicity-matched POAG-negative individuals. Overall, there was no significant enrichment for mutant

  13. Machine Learning and Computer Vision System for Phenotype Data Acquisition and Analysis in Plants

    Directory of Open Access Journals (Sweden)

    Pedro J. Navarro

    2016-05-01

    Full Text Available Phenomics is a technology-driven approach with promising future to obtain unbiased data of biological systems. Image acquisition is relatively simple. However data handling and analysis are not as developed compared to the sampling capacities. We present a system based on machine learning (ML algorithms and computer vision intended to solve the automatic phenotype data analysis in plant material. We developed a growth-chamber able to accommodate species of various sizes. Night image acquisition requires near infrared lightning. For the ML process, we tested three different algorithms: k-nearest neighbour (kNN, Naive Bayes Classifier (NBC, and Support Vector Machine. Each ML algorithm was executed with different kernel functions and they were trained with raw data and two types of data normalisation. Different metrics were computed to determine the optimal configuration of the machine learning algorithms. We obtained a performance of 99.31% in kNN for RGB images and a 99.34% in SVM for NIR. Our results show that ML techniques can speed up phenomic data analysis. Furthermore, both RGB and NIR images can be segmented successfully but may require different ML algorithms for segmentation.

  14. Machine Learning and Computer Vision System for Phenotype Data Acquisition and Analysis in Plants.

    Science.gov (United States)

    Navarro, Pedro J; Pérez, Fernando; Weiss, Julia; Egea-Cortines, Marcos

    2016-01-01

    Phenomics is a technology-driven approach with promising future to obtain unbiased data of biological systems. Image acquisition is relatively simple. However data handling and analysis are not as developed compared to the sampling capacities. We present a system based on machine learning (ML) algorithms and computer vision intended to solve the automatic phenotype data analysis in plant material. We developed a growth-chamber able to accommodate species of various sizes. Night image acquisition requires near infrared lightning. For the ML process, we tested three different algorithms: k-nearest neighbour (kNN), Naive Bayes Classifier (NBC), and Support Vector Machine. Each ML algorithm was executed with different kernel functions and they were trained with raw data and two types of data normalisation. Different metrics were computed to determine the optimal configuration of the machine learning algorithms. We obtained a performance of 99.31% in kNN for RGB images and a 99.34% in SVM for NIR. Our results show that ML techniques can speed up phenomic data analysis. Furthermore, both RGB and NIR images can be segmented successfully but may require different ML algorithms for segmentation. PMID:27164103

  15. Machine Learning and Computer Vision System for Phenotype Data Acquisition and Analysis in Plants.

    Science.gov (United States)

    Navarro, Pedro J; Pérez, Fernando; Weiss, Julia; Egea-Cortines, Marcos

    2016-05-05

    Phenomics is a technology-driven approach with promising future to obtain unbiased data of biological systems. Image acquisition is relatively simple. However data handling and analysis are not as developed compared to the sampling capacities. We present a system based on machine learning (ML) algorithms and computer vision intended to solve the automatic phenotype data analysis in plant material. We developed a growth-chamber able to accommodate species of various sizes. Night image acquisition requires near infrared lightning. For the ML process, we tested three different algorithms: k-nearest neighbour (kNN), Naive Bayes Classifier (NBC), and Support Vector Machine. Each ML algorithm was executed with different kernel functions and they were trained with raw data and two types of data normalisation. Different metrics were computed to determine the optimal configuration of the machine learning algorithms. We obtained a performance of 99.31% in kNN for RGB images and a 99.34% in SVM for NIR. Our results show that ML techniques can speed up phenomic data analysis. Furthermore, both RGB and NIR images can be segmented successfully but may require different ML algorithms for segmentation.

  16. Microfluidic single-cell analysis links boundary environments and individual microbial phenotypes.

    Science.gov (United States)

    Dusny, Christian; Schmid, Andreas

    2015-06-01

    Life is based on the cell as the elementary replicative and self-sustaining biological unit. Each single cell constitutes an independent and highly dynamic system with a remarkable individuality in a multitude of physiological traits and responses to environmental fluctuations. However, with traditional population-based cultivation set-ups, it is not possible to decouple inherent stochastic processes and extracellular contributions to phenotypic individuality for two central reasons: the lack of environmental control and the occlusion of single-cell dynamics by the population average. With microfluidic single-cell analysis as a new cell assay format, these issues can now be addressed, enabling cultivation and time-resolved analysis of single cells in precisely manipulable extracellular environments beyond the bulk. In this article, we explore the interplay of cellular physiology and environment at a single-cell level. We review biological basics that govern the functional state of the cell and put them in context with physical fundamentals that shape the extracellular environment. Furthermore, the significance of single-cell growth rates as pivotal descriptors for global cellular physiology is discussed and highlighted by selected studies. These examples illustrate the unique opportunities of microfluidic single-cell cultivation in combination with growth rate analysis, addressing questions of fundamental bio(techno)logical interest.

  17. Molecular genetic analysis in 14 Czech Kabuki syndrome patients is confirming the utility of phenotypic scoring.

    Science.gov (United States)

    Paděrová, J; Holubová, A; Simandlová, M; Puchmajerová, A; Vlčková, M; Malíková, M; Pourová, R; Vejvalková, S; Havlovicová, M; Šenkeříková, M; Ptáková, N; Drábová, J; Geryk, J; Maver, A; Křepelová, A; Macek, M

    2016-09-01

    Kabuki syndrome (KS) is a dominantly inherited disorder mainly due to de novo pathogenic variation in KMT2D or KDM6A genes. Initially, a representative cohort of 14 Czech cases with clinical features suggestive of KS was analyzed by experienced clinical geneticists in collaboration with other specialties, and observed disease features were evaluated according to the 'MLL2-Kabuki score' defined by Makrythanasis et al. Subsequently, the aforementioned genes were Sanger sequenced and copy number variation analysis was performed by MLPA, followed by genome-wide array CGH testing. Pathogenic variants in KMT2D resulting in protein truncation in 43% (6/14; of which 3 are novel) of all cases were detected, while analysis of KDM6A was negative. MLPA analysis was negative in all instances. One female patient bears a 6.6 Mb duplication of the Xp21.2-Xp21.3 region that is probably disease causing. Subjective KS phenotyping identified predictive clinical features associated with the presence of a pathogenic variant in KMT2D. We provide additional evidence that this scoring approach fosters prioritization of patients prior to KMT2D sequencing. We conclude that KMT2D sequencing followed by array CGH is a diagnostic strategy with the highest diagnostic yield. PMID:26841933

  18. Microgravity Drill and Anchor System

    Science.gov (United States)

    Parness, Aaron; Frost, Matthew A.; King, Jonathan P.

    2013-01-01

    This work is a method to drill into a rock surface regardless of the gravitational field or orientation. The required weight-on-bit (WOB) is supplied by a self-contained anchoring mechanism. The system includes a rotary percussive coring drill, forming a complete sampling instrument usable by robot or human. This method of in situ sample acquisition using micro - spine anchoring technology enables several NASA mission concepts not currently possible with existing technology, including sampling from consolidated rock on asteroids, providing a bolt network for astronauts visiting a near-Earth asteroid, and sampling from the ceilings or vertical walls of lava tubes and cliff faces on Mars. One of the most fundamental parameters of drilling is the WOB; essentially, the load applied to the bit that allows it to cut, creating a reaction force normal to the surface. In every drilling application, there is a minimum WOB that must be maintained for the system to function properly. In microgravity (asteroids and comets), even a small WOB could not be supported conventionally by the weight of the robot or astronaut. An anchoring mechanism would be needed to resist the reactions, or the robot or astronaut would push themselves off the surface and into space. The ability of the system to anchor itself to a surface creates potential applications that reach beyond use in low gravity. The use of these anchoring mechanisms as end effectors on climbing robots has the potential of vastly expanding the scope of what is considered accessible terrain. Further, because the drill is supported by its own anchor rather than by a robotic arm, the workspace is not constrained by the reach of such an arm. Yet, if the drill is on a robotic arm, it has the benefit of not reflecting the forces of drilling back to the arm s joints. Combining the drill with the anchoring feet will create a highly mobile, highly stable, and highly reliable system. The drilling system s anchor uses hundreds of

  19. Muscle contraction phenotypic analysis enabled by optogenetics reveals functional relationships of sarcomere components in Caenorhabditis elegans

    Science.gov (United States)

    Hwang, Hyundoo; Barnes, Dawn E.; Matsunaga, Yohei; Benian, Guy M.; Ono, Shoichiro; Lu, Hang

    2016-01-01

    The sarcomere, the fundamental unit of muscle contraction, is a highly-ordered complex of hundreds of proteins. Despite decades of genetics work, the functional relationships and the roles of those sarcomeric proteins in animal behaviors remain unclear. In this paper, we demonstrate that optogenetic activation of the motor neurons that induce muscle contraction can facilitate quantitative studies of muscle kinetics in C. elegans. To increase the throughput of the study, we trapped multiple worms in parallel in a microfluidic device and illuminated for photoactivation of channelrhodopsin-2 to induce contractions in body wall muscles. Using image processing, the change in body size was quantified over time. A total of five parameters including rate constants for contraction and relaxation were extracted from the optogenetic assay as descriptors of sarcomere functions. To potentially relate the genes encoding the sarcomeric proteins functionally, a hierarchical clustering analysis was conducted on the basis of those parameters. Because it assesses physiological output different from conventional assays, this method provides a complement to the phenotypic analysis of C. elegans muscle mutants currently performed in many labs; the clusters may provide new insights and drive new hypotheses for functional relationships among the many sarcomere components.

  20. Genotype-phenotype matching analysis of 38 Lactococcus lactis strains using random forest methods

    NARCIS (Netherlands)

    Bayjanov, J.; Starrenburg, M.J.; Sijde, M.R. van der; Siezen, R.J.; Hijum, S.A.F.T. van

    2013-01-01

    BACKGROUND: Lactococcus lactis is used in dairy food fermentation and for the efficient production of industrially relevant enzymes. The genome content and different phenotypes have been determined for multiple L. lactis strains in order to understand intra-species genotype and phenotype diversity a

  1. Permanent ground anchors: Nicholson design criteria

    Science.gov (United States)

    Nicholson, P. J.; Uranowski, D. D.; Wycliffe-Jones, P. T.

    1982-09-01

    The methods used by Nicholson Construction Company in the design of permanent ground anchors specifically as related to retaining walls are discussed. Basic soil parameters, design concepts, drilling and grouting methods for ground anchors are discussed. Particular emphasis is placed on anchors founded in soil rather than rock formations. Also, soil properties necessary for the proper design of anchored retaining walls are detailed. The second chapter of the report is devoted to a general discussion of retaining wall and anchor design. In addition, a design example of an anchored retaining wall is presented in a step by step manner.

  2. Download - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

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    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us The Rice Growth...ription Download License Update History of This Database Site Policy | Contact Us Download - The Rice Grow...th Monitoring for The Phenotypic Functional Analysis | LSDB Archive ...

  3. Graph of growth data - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us The Rice Growth...ense Update History of This Database Site Policy | Contact Us Graph of growth data - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive ...

  4. License - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

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    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us The Rice Growth...be sure attribute this database as follows: The Rice Growth Monitoring for the Ph...e History of This Database Site Policy | Contact Us License - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive ...

  5. Pain phenotype as a predictor for drug response in painful polyneuropathy A retrospective analysis of data from controlled clinical trials

    DEFF Research Database (Denmark)

    Holbech, Jakob V; Bach, Flemming W; Finnerup, Nanna B;

    2016-01-01

    better effect in patients with preserved large fiber function with a mean difference in total pain reduction 1.31 (CI: 0.15 to 2.47). No phenotype-specific effects were found for venlafaxine, escitalopram, oxcarbazepine, valproic acid, levetiracetam or St. john's wort. Thus, this post-hoc analysis of 8...

  6. Inference of tumor evolution during chemotherapy by computational modeling and in situ analysis of genetic and phenotypic cellular diversity

    NARCIS (Netherlands)

    Almendro, Vanessa; Cheng, Yu-Kang; Randles, Amanda; Itzkovitz, Shalev; Marusyk, Andriy; Ametller, Elisabet; Gonzalez-Farre, Xavier; Muñoz, Montse; Russnes, Hege G; Helland, Aslaug; Rye, Inga H; Borresen-Dale, Anne-Lise; Maruyama, Reo; van Oudenaarden, Alexander; Dowsett, Mitchell; Jones, Robin L; Reis-Filho, Jorge; Gascon, Pere; Gönen, Mithat; Michor, Franziska; Polyak, Kornelia

    2014-01-01

    Cancer therapy exerts a strong selection pressure that shapes tumor evolution, yet our knowledge of how tumors change during treatment is limited. Here, we report the analysis of cellular heterogeneity for genetic and phenotypic features and their spatial distribution in breast tumors pre- and post-

  7. Hair Analysis for Determination of Isoniazid Concentrations and Acetylator Phenotype during Antituberculous Treatment

    Directory of Open Access Journals (Sweden)

    Michael Eisenhut

    2012-01-01

    Full Text Available Background. Analysis of isoniazid (INH uptake has been based on measurement of plasma concentrations providing a short-term and potentially biased view. Objectives. To establish hair analysis as a tool to measure long-term uptake of INH and to assess whether acetylator phenotype in hair reflects N-acetyltransferase-2 (NAT2 genotype. Design and Methods. INH and acetyl-INH concentrations in hair were determined in patients on INH treatment for M. tuberculosis infection using high pressure liquid chromatography/mass spectrometry. Acetyl-INH/INH ratios were correlated with NAT-2 genotype. Results. Hair concentrations of INH, determined in 40 patients, were not dependent on ethnic group or body mass index and were significantly higher in male compared to female patients (median (range 2.37 ng/mg (0.76–4.9 versus 1.11 ng/mg (0.02–7.20 (P=0.02. Acetyl-INH/INH ratios were a median of 15.2% (14.5 to 31.7 in homozygous rapid acetylator NAT-2 genotype and 37.3% (1.73 to 51.2 in the heterozygous rapid acetylator NAT-2 genotype and both significantly higher than in the slow acetylator NAT-2 genotype with 5.8% (0.53 to 14.4 (P<0.05. Conclusions. Results of hair analysis for INH showed lower concentrations in females. Acetyl-INH/INH ratios were significantly lower in patients with slow acetylator versus rapid acetylator genotypes.

  8. Genomic analysis of natural selection and phenotypic variation in high-altitude mongolians.

    Directory of Open Access Journals (Sweden)

    Jinchuan Xing

    Full Text Available Deedu (DU Mongolians, who migrated from the Mongolian steppes to the Qinghai-Tibetan Plateau approximately 500 years ago, are challenged by environmental conditions similar to native Tibetan highlanders. Identification of adaptive genetic factors in this population could provide insight into coordinated physiological responses to this environment. Here we examine genomic and phenotypic variation in this unique population and present the first complete analysis of a Mongolian whole-genome sequence. High-density SNP array data demonstrate that DU Mongolians share genetic ancestry with other Mongolian as well as Tibetan populations, specifically in genomic regions related with adaptation to high altitude. Several selection candidate genes identified in DU Mongolians are shared with other Asian groups (e.g., EDAR, neighboring Tibetan populations (including high-altitude candidates EPAS1, PKLR, and CYP2E1, as well as genes previously hypothesized to be associated with metabolic adaptation (e.g., PPARG. Hemoglobin concentration, a trait associated with high-altitude adaptation in Tibetans, is at an intermediate level in DU Mongolians compared to Tibetans and Han Chinese at comparable altitude. Whole-genome sequence from a DU Mongolian (Tianjiao1 shows that about 2% of the genomic variants, including more than 300 protein-coding changes, are specific to this individual. Our analyses of DU Mongolians and the first Mongolian genome provide valuable insight into genetic adaptation to extreme environments.

  9. 基坑锚杆与土钉复合支护的FLAC数值分析%Numerical Analysis on the Composite Support Techinque of Prestressed Anchor Arm and Brad by FLAC

    Institute of Scientific and Technical Information of China (English)

    冯永; 王琳鸽

    2011-01-01

    预应力锚杆+土钉复合支护技术在基坑工程中的应用已越来越广泛.本文以郑州市王家寨基坑工程为实例,采用FLAC数值分析法建立了基坑锚杆与土钉复合支护计算模型.对土体选取理想弹塑性本构模型,对预应力锚杆和土钉选取cable单元,同时考虑支护体系与土体之间的相互作用,对基坑的开挖支护的动态过程进行了模拟分析,研究了基坑开挖对土体的扰动、基坑位移变化以及土钉和锚杆的内力分布规律.研究结论对锚杆与土钉复合支护设计具有一定借鉴意义.%The composite support technique of prestressed anchor arm and brad has been more and more widely used in foundation pit excavating. Taking a deep foundation excavation at Wangjiazhai, Zhengzhou city as an example, the computation model for the composite support technique of prestressed anchor arm and brad is established using FLAC numerical analysis method. The dynamic process of foundation excavating and support, considering the mutual effect between the support system and soil mass, is simulated. The destabilization of excavation on soil, the displacement change of foundation pit and inner force of brad and prestressed anchor are studied. The conclusions had some reference value for design and construction of the upport technique.

  10. Newcomers' cognitive development of social identification: a cross-sectional and longitudinal analysis of self-anchoring and self-stereotyping.

    Science.gov (United States)

    van Veelen, Ruth; Hansen, Nina; Otten, Sabine

    2014-06-01

    Upon joining a new social category, group members strive to establish and maintain high social identification. Thus far, we know relatively little about the cognitive underpinnings of social identification when developing from a new to a well-established group member. This research investigates the differential impact of newcomers' self-stereotyping (i.e., assimilation of the self to group stereotypes) and self-anchoring (i.e., projection of self-attributes onto the ingroup) on the development of social identification over time. Across two time points during the academic year, first year psychology students (N = 123) filled in a questionnaire on their perceptions about the self, psychology students, and social identification. Cross-sectional and longitudinal analyses confirmed our hypotheses that self-anchoring instigated new group members' social identification, while self-stereotyping instigated social identification once group membership was more well-established. This research emphasizes the interactive role of the personal and social self in the development of social identification. PMID:23675674

  11. Newcomers' cognitive development of social identification: a cross-sectional and longitudinal analysis of self-anchoring and self-stereotyping.

    Science.gov (United States)

    van Veelen, Ruth; Hansen, Nina; Otten, Sabine

    2014-06-01

    Upon joining a new social category, group members strive to establish and maintain high social identification. Thus far, we know relatively little about the cognitive underpinnings of social identification when developing from a new to a well-established group member. This research investigates the differential impact of newcomers' self-stereotyping (i.e., assimilation of the self to group stereotypes) and self-anchoring (i.e., projection of self-attributes onto the ingroup) on the development of social identification over time. Across two time points during the academic year, first year psychology students (N = 123) filled in a questionnaire on their perceptions about the self, psychology students, and social identification. Cross-sectional and longitudinal analyses confirmed our hypotheses that self-anchoring instigated new group members' social identification, while self-stereotyping instigated social identification once group membership was more well-established. This research emphasizes the interactive role of the personal and social self in the development of social identification.

  12. Push Force Analysis of Anchor Block of the Oil and Gas Pipeline in a Single-Slope Tunnel Based on the Energy Balance Method.

    Science.gov (United States)

    Yan, Yifei; Zhang, Lisong; Yan, Xiangzhen

    2016-01-01

    In this paper, a single-slope tunnel pipeline was analysed considering the effects of vertical earth pressure, horizontal soil pressure, inner pressure, thermal expansion force and pipeline-soil friction. The concept of stagnation point for the pipeline was proposed. Considering the deformation compatibility condition of the pipeline elbow, the push force of anchor blocks of a single-slope tunnel pipeline was derived based on an energy method. Then, the theoretical formula for this force is thus generated. Using the analytical equation, the push force of the anchor block of an X80 large-diameter pipeline from the West-East Gas Transmission Project was determined. Meanwhile, to verify the results of the analytical method, and the finite element method, four categories of finite element codes were introduced to calculate the push force, including CAESARII, ANSYS, AutoPIPE and ALGOR. The results show that the analytical results agree well with the numerical results, and the maximum relative error is only 4.1%. Therefore, the results obtained with the analytical method can satisfy engineering requirements.

  13. Genotype-Phenotype Analysis in Congenital Adrenal Hyperplasia due to P450 Oxidoreductase Deficiency

    NARCIS (Netherlands)

    Krone, Nils; Reisch, Nicole; Idkowiak, Jan; Dhir, Vivek; Ivison, Hannah E.; Hughes, Beverly A.; Rose, Ian T.; O'Neil, Donna M.; Vijzelaar, Raymon; Smith, Matthew J.; MacDonald, Fiona; Cole, Trevor R.; Adolphs, Nicolai; Barton, John S.; Blair, Edward M.; Braddock, Stephen R.; Collins, Felicity; Cragun, Deborah L.; Dattani, Mehul T.; Day, Ruth; Dougan, Shelley; Feist, Miriam; Gottschalk, Michael E.; Gregory, John W.; Haim, Michaela; Harrison, Rachel; Olney, Ann Haskins; Hauffa, Berthold P.; Hindmarsh, Peter C.; Hopkin, Robert J.; Jira, Petr E.; Kempers, Marlies; Kerstens, Michiel N.; Khalifa, Mohamed M.; Koehler, Birgit; Maiter, Dominique; Nielsen, Shelly; O'Riordan, Stephen M.; Roth, Christian L.; Shane, Kate P.; Silink, Martin; Stikkelbroeck, Nike M. M. L.; Sweeney, Elizabeth; Szarras-Czapnik, Maria; Waterson, John R.; Williamson, Lori; Hartmann, Michaela F.; Taylor, Norman F.; Wudy, Stefan A.; Malunowicz, Ewa M.; Shackleton, Cedric H. L.; Arlt, Wiebke; Smith, M.J.

    2012-01-01

    Context: P450 oxidoreductase deficiency (PORD) is a unique congenital adrenal hyperplasia variant that manifests with glucocorticoid deficiency, disordered sex development (DSD), and skeletal malformations. No comprehensive data on genotype-phenotype correlations in Caucasian patients are available.

  14. Phenotypic and plasmid pattern analysis of Staphylococcus epidermidis in bacterial keratitis

    Directory of Open Access Journals (Sweden)

    Nayak Niranjan

    2007-01-01

    Full Text Available Background: Staphylococcus epidermidis , a commensal of the conjunctival sac has been incriminated as the commonest etiological agent of bacterial keratitis. However, the pathogenic potential of this commensal organism is not clearly known. Aim: To determine any phenotypic, molecular markers of S. epidermidis pathogenicity in bacterial keratitis. Materials and Methods: A total of 382 corneal ulcer isolates of S. epidermidis and 87 S. epidermidis isolates from healthy eyes (controls were studied. Speciation, biotyping and antibiotic sensitivity testing were performed by conventional methods. Tube slime and adherence tests were carried out by recommended techniques. Plasmid analysis was conducted by a standard protocol. Statistical Analysis: Chi-square test was employed for calculations. Results: Out of 382 corneal ulcer isolates (Pathogens 284 (74.3% belonged to biotypes I and II. Slime was detected in 164 (42.9% of 382 pathogens vs. 21 (24.1% of 87 controls ( P < 0.001. Sixty-five (39.6% of 164 slime positive isolates were multidrug-resistant as compared to only 49 (22.4% of 218 slime negative isolates ( P < 0.001. A significantly higher number i.e., 73.1% (120/164 of slime-producers possessed a 21Kb plasmid in contrast to only 53.2% (116/218 of nonslime-producers ( P < 0.001. Presence of this plasmid had a statistical correlation of low significance with multidrug resistance ( P =0.04. One hundred and seventy-two (45.0% of 382 pathogens and 24 (27.6% of the 87 controls were adherent to artificial surfaces ( P =0.003 and the majority of the adherent organisms (99/172, 57.6% were slime producers ( P < 0.001. Conclusions: Slime was associated with multidrug resistance in corneal ulcer isolates of S. epidermidis . The 21Kb plasmid could determine virulence as it was responsible for slime production and adherence.

  15. Phenotypic and Genomic Analysis of Hypervirulent Human-associated Bordetella bronchiseptica

    Directory of Open Access Journals (Sweden)

    Ahuja Umesh

    2012-08-01

    Full Text Available Abstract Background B. bronchiseptica infections are usually associated with wild or domesticated animals, but infrequently with humans. A recent phylogenetic analysis distinguished two distinct B. bronchiseptica subpopulations, designated complexes I and IV. Complex IV isolates appear to have a bias for infecting humans; however, little is known regarding their epidemiology, virulence properties, or comparative genomics. Results Here we report a characterization of the virulence of human-associated complex IV B. bronchiseptica strains. In in vitro cytotoxicity assays, complex IV strains showed increased cytotoxicity in comparison to a panel of complex I strains. Some complex IV isolates were remarkably cytotoxic, resulting in LDH release levels in A549 cells that were 10- to 20-fold greater than complex I strains. In vivo, a subset of complex IV strains was found to be hypervirulent, with an increased ability to cause lethal pulmonary infections in mice. Hypercytotoxicity in vitro and hypervirulence in vivo were both dependent on the activity of the bsc T3SS and the BteA effector. To clarify differences between lineages, representative complex IV isolates were sequenced and their genomes were compared to complex I isolates. Although our analysis showed there were no genomic sequences that can be considered unique to complex IV strains, there were several loci that were predominantly found in complex IV isolates. Conclusion Our observations reveal a T3SS-dependent hypervirulence phenotype in human-associated complex IV isolates, highlighting the need for further studies on the epidemiology and evolutionary dynamics of this B. bronchiseptica lineage.

  16. TATES: efficient multivariate genotype-phenotype analysis for genome-wide association studies.

    Directory of Open Access Journals (Sweden)

    Sophie van der Sluis

    Full Text Available To date, the genome-wide association study (GWAS is the primary tool to identify genetic variants that cause phenotypic variation. As GWAS analyses are generally univariate in nature, multivariate phenotypic information is usually reduced to a single composite score. This practice often results in loss of statistical power to detect causal variants. Multivariate genotype-phenotype methods do exist but attain maximal power only in special circumstances. Here, we present a new multivariate method that we refer to as TATES (Trait-based Association Test that uses Extended Simes procedure, inspired by the GATES procedure proposed by Li et al (2011. For each component of a multivariate trait, TATES combines p-values obtained in standard univariate GWAS to acquire one trait-based p-value, while correcting for correlations between components. Extensive simulations, probing a wide variety of genotype-phenotype models, show that TATES's false positive rate is correct, and that TATES's statistical power to detect causal variants explaining 0.5% of the variance can be 2.5-9 times higher than the power of univariate tests based on composite scores and 1.5-2 times higher than the power of the standard MANOVA. Unlike other multivariate methods, TATES detects both genetic variants that are common to multiple phenotypes and genetic variants that are specific to a single phenotype, i.e. TATES provides a more complete view of the genetic architecture of complex traits. As the actual causal genotype-phenotype model is usually unknown and probably phenotypically and genetically complex, TATES, available as an open source program, constitutes a powerful new multivariate strategy that allows researchers to identify novel causal variants, while the complexity of traits is no longer a limiting factor.

  17. 77 FR 65496 - Commercial Acquisition; Anchor Tenancy

    Science.gov (United States)

    2012-10-29

    ... . SUPPLEMENTARY INFORMATION: A. Background NASA published a proposed rule in the Federal Register at 76 FR 30301... SPACE ADMINISTRATION 48 CFR Part 1812 RIN 2700-AD64 Commercial Acquisition; Anchor Tenancy AGENCY... limited conditions, to issue Anchor Tenancy contracts. Anchor Tenancy means ``an arrangement in which...

  18. Tumor progression: analysis of the instability of the metastatic phenotype, sensitivity to radiation and chemotherapy

    International Nuclear Information System (INIS)

    The major complications for tumor therapy are 1) tumor spread (metastasis); 2) the mixed nature of tumors (heterogeneity); and 3) the capacity of tumors to evolve (progress). To study these tumor characteristics, the rat 13762NF mammary adenocarcinoma was cloned and studied for metastatic properties and sensitivities to therapy (chemotherapy, radiation and hyperthermia). The cell clones were heterogeneous and no correlation between metastatic potential and therapeutic sensitivities was observed. Further, these phenotypes were unstable during pasage in vitro; yet, the changes were clone dependent and reproducible using different cryoprotected cell stocks. To understand the phenotypic instability, subclones were isolated from low and high passage cell clones. The results demonstrated that 1) tumor cells are heterogeneous for multiple phenotypes; 2) tumor cells are unstable for multiple phenotypes; 3) the magnitude, direction and time of occurrence of phenotypic drift is clone dependent; 4) the sensitivity of cell clones to ionizing radiation (γ or heat) and chemotherapy agents is independent of their metastatic potential; 5) shifts in metastatic potential and sensitivity to therapy may occur simultaneously but are not linked; and 6) tumor cells independently diverge to form several subpopulations with unique phenotypic profiles

  19. 饱和粉细砂层锚索预应力变化规律监测分析%Monitoring and analysis of variation of anchor prestress in saturated silty sand condition

    Institute of Scientific and Technical Information of China (English)

    刘波; 张功; 周浩亮; 李东阳; 娄学谦; 黄冕; 王学庆

    2014-01-01

    锚索的预应力损失在工程建设中不可忽视,工程的场地环境条件成为影响锚索预应力损失的主因。饱和粉细砂层较其他地质条件更为复杂敏感,更易引起锚索预应力值的损失。通过对廊坊市某深基坑工程锚索预应力值的实时监测,结合工程环境,分析饱和粉细砂层中造成锚索预应力值变化的原因。结果表明,施工过程、张拉过程以及环境因素都影响锚索预应力的变化,其中开挖过程的影响最明显,预应力值的变化率最大值达79.1%;瞬时卸载造成预应力值22.8%~59.2%的损失。对饱和粉细砂层中锚索预应力变化规律的研究分析结论可为类似地质环境的工程建设提供经验。%Prestress loss of anchor cable should not be neglected in engineering construction. The cause of prestress loss is usually related to engineering site condition. The saturated silty sand is more complicated and sensitive than other geological conditions, which is more likely to cause prestress loss. Through real-time monitoring of anchor prestress of a deep foundation pit in Langfang city, combining with the engineering environment, factors influencing on variation of anchor prestress are analyzed. The results show that the process of construction, tension and environmental factors affect the variation of prestress. The most obvious impact is the excavation process; and the maximum rate of variation of prestress value is 79.1%; instantaneous unloading causes values of prestress loss between 22.8% to 59.2%. The influence of construction process is most obvious. Experience for similar geological engineering construction is provided through the research and analysis of variation law of anchor prestress.

  20. High-throughput phenotypic profiling of gene-environment interactions by quantitative growth curve analysis in Saccharomyces cerevisiae.

    Science.gov (United States)

    Weiss, Andrew; Delproposto, James; Giroux, Craig N

    2004-04-01

    Cell-based assays are widely used in high-throughput screening to determine the effects of toxicants and drugs on their biological targets. To enable a functional genomics modeling of gene-environment interactions, quantitative assays are required both for gene expression and for the phenotypic responses to environmental challenge. To address this need, we describe an automated high-throughput methodology that provides phenotypic profiling of the cellular responses to environmental stress in Saccharomyces cerevisiae. Standardized assay conditions enable the use of a single metric value to quantify yeast microculture growth curves. This assay format allows precise control of both genetic and environmental determinants of the cellular responses to oxidative stress, a common mechanism of environmental insult. These yeast-cell-based assays are validated with hydrogen peroxide, a simple direct-acting oxidant. Phenotypic profiling of the oxidative stress response of a yap1 mutant strain demonstrates the mechanistic analysis of genetic susceptibility to oxidative stress. As a proof of concept for analysis of more complex gene-environment interactions, we describe a combinatorial assay design for phenotypic profiling of the cellular responses to tert-butyl hydroperoxide, a complex oxidant that is actively metabolized by its target cells. Thus, the yeast microculture assay format supports comprehensive applications in toxicogenomics. PMID:15033507

  1. Biochemical and structural analysis of missense mutations in N-acetylgalactosamine-6-sulfate sulfatase causing mucopolysaccharidosis IVA phenotypes.

    Science.gov (United States)

    Sukegawa, K; Nakamura, H; Kato, Z; Tomatsu, S; Montaño, A M; Fukao, T; Toietta, G; Tortora, P; Orii, T; Kondo, N

    2000-05-22

    Mucopolysaccharidosis IVA (MPS IVA; OMIM#253000), a lysosomal storage disorder caused by a deficiency of N -acetylgalactosamine-6-sulfate sulfatase (GALNS), has variable clinical phenotypes. To date we have identified 65 missense mutations in the GALNS gene from MPS IVA patients, but the correlation between genotype and phenotype has remained unclear. We studied 17 missense mutations using biochemical approaches and 32 missense mutations, using structural analyses. Fifteen missense mutations and two newly engineered active site mutations (C79S, C79T) were characterized by transient expression analysis. Mutant proteins, except for C79S and C79T, were destabilized and detected as insoluble precursor forms while the C79S and C79T mutants were of a soluble mature size. Mutants found in the severe phenotype had no activity. Mutants found in the mild phenotype had a considerable residual activity (1.3-13.3% of wild-type GALNS activity). Sulfatases, including GALNS, are members of a highly conserved gene family sharing an extensive sequence homology. Thus, a tertiary structural model of human GALNS was constructed from the X-ray crystal structure of N -acetylgalacto-samine-4-sulfatase and arylsulfatase A, using homology modeling, and 32 missense mutations were investigated. Consequently, we propose that there are at least three different reasons for the severe phenotype: (i) destruction of the hydrophobic core or modification of the packing; (ii) removal of a salt bridge to destabilize the entire conformation; (iii) modification of the active site. In contrast, mild mutations were mostly located on the surface of the GALNS protein. These studies shed further light on the genotype-phenotype correlation of MPS IVA and structure-function relationship in the sulfatase family. PMID:10814710

  2. A Clustered Multiclass Likelihood-Ratio Ensemble Method for Family-Based Association Analysis Accounting for Phenotypic Heterogeneity.

    Science.gov (United States)

    Wen, Yalu; Lu, Qing

    2016-09-01

    Although compelling evidence suggests that the genetic etiology of complex diseases could be heterogeneous in subphenotype groups, little attention has been paid to phenotypic heterogeneity in genetic association analysis of complex diseases. Simply ignoring phenotypic heterogeneity in association analysis could result in attenuated estimates of genetic effects and low power of association tests if subphenotypes with similar clinical manifestations have heterogeneous underlying genetic etiologies. To facilitate the family-based association analysis allowing for phenotypic heterogeneity, we propose a clustered multiclass likelihood-ratio ensemble (CMLRE) method. The proposed method provides an alternative way to model the complex relationship between disease outcomes and genetic variants. It allows for heterogeneous genetic causes of disease subphenotypes and can be applied to various pedigree structures. Through simulations, we found CMLRE outperformed the commonly adopted strategies in a variety of underlying disease scenarios. We further applied CMLRE to a family-based dataset from the International Consortium to Identify Genes and Interactions Controlling Oral Clefts (ICOC) to investigate the genetic variants and interactions predisposing to subphenotypes of oral clefts. The analysis suggested that two subphenotypes, nonsyndromic cleft lip without palate (CL) and cleft lip with palate (CLP), shared similar genetic etiologies, while cleft palate only (CP) had its own genetic mechanism. The analysis further revealed that rs10863790 (IRF6), rs7017252 (8q24), and rs7078160 (VAX1) were jointly associated with CL/CLP, while rs7969932 (TBK1), rs227731 (17q22), and rs2141765 (TBK1) jointly contributed to CP.

  3. CFRP加固构件锚固端加强处理的有限元分析%Finite element analysis on the anchor end enhancement processing of CFRP reinforcement member

    Institute of Scientific and Technical Information of China (English)

    李宝来; 谭果祥; 田伟新

    2009-01-01

    以梁柱角节点为例,在梁端顶部碳纤维锚固段粘贴钢板,并向外延伸在转角处向柱旋转90°包裹混凝土,并在适当位置设置钢箍或螺栓,用有限元对其进行了分析,比较了钢板厚度,钢板有无转角,锚栓位置等情况对锚固性能的影响,并给出了一些建议.%Taking the beam-column angle node as example, the author pastes steel plate on the carbon fiber anchorage section of the beam-col-umn top, prolongs to outside and parcels concrete rotating 90 degree to the column on the comer, and sets steel hoop or bolt on suitable place, gets analysis based on the finite element, compares the influences of factors on anchor performance, such as the thickness of the steel plate, steel plate angle and anchor place, and provides some suggestion.

  4. Differential analysis of ovarian and endometrial cancers identifies a methylator phenotype.

    Directory of Open Access Journals (Sweden)

    Diana L Kolbe

    Full Text Available Despite improved outcomes in the past 30 years, less than half of all women diagnosed with epithelial ovarian cancer live five years beyond their diagnosis. Although typically treated as a single disease, epithelial ovarian cancer includes several distinct histological subtypes, such as papillary serous and endometrioid carcinomas. To address whether the morphological differences seen in these carcinomas represent distinct characteristics at the molecular level we analyzed DNA methylation patterns in 11 papillary serous tumors, 9 endometrioid ovarian tumors, 4 normal fallopian tube samples and 6 normal endometrial tissues, plus 8 normal fallopian tube and 4 serous samples from TCGA. For comparison within the endometrioid subtype we added 6 primary uterine endometrioid tumors and 5 endometrioid metastases from uterus to ovary. Data was obtained from 27,578 CpG dinucleotides occurring in or near promoter regions of 14,495 genes. We identified 36 locations with significant increases or decreases in methylation in comparisons of serous tumors and normal fallopian tube samples. Moreover, unsupervised clustering techniques applied to all samples showed three major profiles comprising mostly normal samples, serous tumors, and endometrioid tumors including ovarian, uterine and metastatic origins. The clustering analysis identified 60 differentially methylated sites between the serous group and the normal group. An unrelated set of 25 serous tumors validated the reproducibility of the methylation patterns. In contrast, >1,000 genes were differentially methylated between endometrioid tumors and normal samples. This finding is consistent with a generalized regulatory disruption caused by a methylator phenotype. Through DNA methylation analyses we have identified genes with known roles in ovarian carcinoma etiology, whereas pathway analyses provided biological insight to the role of novel genes. Our finding of differences between serous and endometrioid

  5. Performance Analysis of the Anchor-free Localization Algorithm with Low-Complexity Method for Node Distance Estimation Enhancement Using ToA

    Directory of Open Access Journals (Sweden)

    CIPOV Vladimír

    2013-05-01

    Full Text Available The Ultra Wide-Band (UWB communication technology is used in ToA and these systems are capable resolving individual multipath components in the received Channel Impulse Response and determining their time of their arrival very precisely. In this article the anchor-free localization algorithm using ToA node distance estimation technique is introduced. We propose a low-complexity method for mitigation of the Undetected Direct Path effect which causes considerable errors in the node distance estimation. The method is based on combination of the time delay differences of the reflected paths detected in the measured channel power delay profile, overall channel impulse response length and Mean Excess Delay calculated relative to the firstdetected path.

  6. Analysis of phenotype array data from Biolog MicroPlatesTM

    Institute of Scientific and Technical Information of China (English)

    John Bissett; Carol Ann Nolan

    2004-01-01

    @@ Biolog MicroPlatesTM are employed to characterize Trichoderma isolates based on differential assimilation of test substrates and redox reactions in a 96-well test plate. The Biolog method is potentially advantageous in being relatively simple, fast and economical, and data acquisition can be automated using a microplate reader and applicable software. Several research applications of the Biolog system are presented: i) "monophenetic groups" from cluster analyses of phenotype array data are investigated for previously undetected new species in Trichoderma, ii) metabolic characters differentiating species are identified, and multivariate analyses performed to complement molecular data in validating new species and significant variants, and iii) phenotype array data for more than 1200 Trichoderma strains are analysed to select strains that might be exploited for bioconversions and commercial production of enzymes. Phenotype arrays are much more sensitive to strain level variation than molecular techniques, however, phenotype array data do not consistently reflect phylogenies constructed from molecular data. Nevertheless, the Biolog phenotype array is an economical alternative method for surveying biological diversity, and provides data that complements molecular data in phylogenetic studies.

  7. Anchoring in numeric judgments of visual stimuli

    Directory of Open Access Journals (Sweden)

    Linda eLangeborg

    2016-02-01

    Full Text Available This article investigates effects of anchoring in age estimation and estimation of quantities, two tasks which to different extents are based on visual stimuli. The results are compared to anchoring in answers to classic general knowledge questions that rely on semantic knowledge. Cognitive load was manipulated to explore possible differences between domains. Effects of source credibility, manipulated by differing instructions regarding the selection of anchor values (no information regarding anchor selection, information that the anchors are randomly generated or information that the anchors are answers from an expert on anchoring were also investigated. Effects of anchoring were large for all types of judgments but were not affected by cognitive load or by source credibility in either one of the researched domains. A main effect of cognitive load on quantity estimations and main effects of source credibility in the two visually based domains indicate that the manipulations were efficient. Implications for theoretical explanations of anchoring are discussed. In particular, because anchoring did not interact with source credibility or cognitive load, the results imply that the process behind anchoring in visual tasks is predominantly automatic and unconscious.

  8. Anchoring in Numeric Judgments of Visual Stimuli.

    Science.gov (United States)

    Langeborg, Linda; Eriksson, Mårten

    2016-01-01

    This article investigates effects of anchoring in age estimation and estimation of quantities, two tasks which to different extents are based on visual stimuli. The results are compared to anchoring in answers to classic general knowledge questions that rely on semantic knowledge. Cognitive load was manipulated to explore possible differences between domains. Effects of source credibility, manipulated by differing instructions regarding the selection of anchor values (no information regarding anchor selection, information that the anchors are randomly generated or information that the anchors are answers from an expert) on anchoring were also investigated. Effects of anchoring were large for all types of judgments but were not affected by cognitive load or by source credibility in either one of the researched domains. A main effect of cognitive load on quantity estimations and main effects of source credibility in the two visually based domains indicate that the manipulations were efficient. Implications for theoretical explanations of anchoring are discussed. In particular, because anchoring did not interact with cognitive load, the results imply that the process behind anchoring in visual tasks is predominantly automatic and unconscious. PMID:26941684

  9. Anchoring in Numeric Judgments of Visual Stimuli.

    Science.gov (United States)

    Langeborg, Linda; Eriksson, Mårten

    2016-01-01

    This article investigates effects of anchoring in age estimation and estimation of quantities, two tasks which to different extents are based on visual stimuli. The results are compared to anchoring in answers to classic general knowledge questions that rely on semantic knowledge. Cognitive load was manipulated to explore possible differences between domains. Effects of source credibility, manipulated by differing instructions regarding the selection of anchor values (no information regarding anchor selection, information that the anchors are randomly generated or information that the anchors are answers from an expert) on anchoring were also investigated. Effects of anchoring were large for all types of judgments but were not affected by cognitive load or by source credibility in either one of the researched domains. A main effect of cognitive load on quantity estimations and main effects of source credibility in the two visually based domains indicate that the manipulations were efficient. Implications for theoretical explanations of anchoring are discussed. In particular, because anchoring did not interact with cognitive load, the results imply that the process behind anchoring in visual tasks is predominantly automatic and unconscious.

  10. 基于Barton-Bandis准则的锚固边坡稳定性分析%Stability analysis of anchored rock slope based on Barton-Bandis failure criterion

    Institute of Scientific and Technical Information of China (English)

    罗强; 赵炼恒; 李亮; 谭捍华; 罗伟

    2013-01-01

      结合岩石节理面非线性Barton-Bandis破坏准则,探讨了将Barton-Bandis破坏准则参数转化为线性Mohr-Coulomb破坏准则抗剪强度参数的两种常用方法,通过实例分析了各方法的优劣。推导了加锚单岩石节理面控制的平面滑动岩体边坡抗滑稳定性安全系数计算式,开展了锚固参数分析。研究表明:相对于采用等效线性拟合法或切线等效法获取Mohr-Coulomb抗剪强度参数而言,直接应用 Barton-Bandis 破坏准则计算节理面控制的岩石边坡稳定性更为直观和简便;随着结构面基本摩擦角、结构面粗糙度系数和结构面壁面有效抗压强度的增大,边坡安全系数逐步提高,且结构面基本摩擦角和粗糙度系数对边坡安全系数的影响程度更为显著;锚索锚固力越大,边坡抗滑稳定性越好,而锚索设置角度越大,边坡抗滑稳定性越低,锚索角度设置不当将明显减小锚固效应的有效性。%Based on the Barton-Bandis failure criterion, this paper explores two common methods on converting the nonlinear strength parameters of Barton-Bandis failure criterion into the linear shear strength parameters c,φof Mohr-Coulomb failure criterion, and discusses their advantages and disadvantages by case study. Following this idea, the anti-sliding stability factor was deduced for such a plane slide rock slope, which was reinforced by prestressed anchor cable and controlled by single rock joint. Next, the analysis of parameters on anchoring was conducted. Parametric analysis shows that, studying the anti-sliding stability factor of plane slide rock slope by Barton-Bandis failure criterion is intuitive and effective, in comparison with obtaining the Mohr-Coulomb shear strength parameters with the equivalent linear fitting or tangent equivalent method. Meanwhile, the slope safety factor increases significantly with the increase of three factors, namely, the basic friction angle, the

  11. Clustering and classical analysis of clinical and placental phenotypes in fetal growth restriction and constitutional fetal smallness.

    Science.gov (United States)

    Stanek, Jerzy; Biesiada, Jacek

    2016-06-01

    This study aims to determine whether placental examination can be used to distinguish between pathologic fetal growth restriction (FGR) and constitutional fetal smallness. Data were extracted from a clinicoplacental database of high risk pregnancies during the period 1994-2013. These data were used to compare the 590 consecutive cases having birth weights below the 10th percentile with the 5201 remaining cases having gestational ages ≥20 weeks. The authors analyzed 20 clinical and 46 placental phenotypes using classical statistics, clustering analysis, and multidimensional scaling. Of the low-birth-weight babies, the following types of cases were compared: Four categories of placental phenotypes (those with features of poor uteroplacental perfusion, postuterine placental pathology, chronic inflammation, and a mixed category) better defined the presumably true FGR than did the clinical phenotypes. Maternal smoking and oligohydramnios were associated with fewer abnormal placental phenotypes than were maternal hypertensive diseases and abnormal Dopplers. Early-onset cases of fetal smallness clustered with placental features of poor uteroplacental perfusion, whereas late onset cases did not. Placental examination helps to retrospectively distinguish constitutionally small fetuses from those that are pathologically growth restricted. The latter correlate best with the clinical risk for FGR and with early-onset FGR. This correlation may have prognostic significance for the child and for future pregnancies, since hypoxic placental lesions can occur without clinical risk factors but with a tendency to recur in future pregnancies. PMID:27238719

  12. Theoretical model and solution for the rheological problem of anchor-grouting a soft rock tunnel

    International Nuclear Information System (INIS)

    The paper presents an analytical method for analysis of the soft rock tunnel, based on a model dividing soft rock tunnels into a region of anchor-grouting and a region of non-anchor-grouting surrounding rock. The Poynting-Thomson model and the Kelvin-Hooke model are applied to the region of non-anchor-grouting surrounding rock and the region of anchor-grouting, respectively. Stress expressions in the region of non-anchor-grouting surrounding rock and the region of anchor-grouting are obtained. Expanding the expression of displacements in the region of anchor-grouting into a Maclaurin series, and utilizing the cumulative displacement curve of the surrounding rock through observation, a theoretical model is set up. This model and its solution for the rheology problem of anchor-grouting a soft tunnel have been proved to be effective in practical engineering; according to the Mohr-Coulomb yield condition, a safe criterion for an anchor-grouting soft rock of a tunnel can be found

  13. Use of cluster analysis to describe desaturator phenotypes in COPD: correlations between pulmonary function tests and nocturnal oxygen desaturation

    Directory of Open Access Journals (Sweden)

    Toraldo DM

    2011-11-01

    Full Text Available Domenico Maurizio Toraldo1, Francesco De Nuccio2, Annarita Gaballo1, Giuseppe Nicolardi21A Galateo Lung Disease Hospital, Regional Service Puglia, San Cesario di Lecce, 2Laboratory of Human Anatomy, Department of Biological and Environmental Sciences and Technologies, University of Lecce, Lecce, ItalyBackground: Significant heterogeneity of clinical presentation and disease progression exists within chronic obstructive pulmonary disease (COPD. Although forced expiratory volume in 1 second (FEV1 inadequately describes this heterogeneity, a clear alternative has not emerged. This article discusses and refines the concept of phenotyping desaturators in COPD and shows a possible pattern which could be used as a framework for future research.Recent findings: COPD is a complex condition with pulmonary and extrapulmonary manifestations. We suggest that COPD phenotypes should be associated with clinically meaningful outcomes. The innovation of COPD phenotyping is defined as COPD desaturators. Sleep-related hypoxemia and hypercapnia are well recognized in COPD and the development of systemic inflammation during sleep. These sleep-related changes predispose to nocturnal cardiac arrhythmias, pulmonary hypertension, and possibly death, particularly during acute exacerbations.Conclusion: A more focused definition makes possible a classification of patients into two distinct subgroups for both clinical and research purposes. Establishing a common language for future research will facilitate our understanding and management of such diseases. Even if different treatment strategies have different outcomes for these groups, we will have confirmation, or otherwise, of the clinical value of cluster analysis. This knowledge could lead to pharmacological treatment and other interventions directed to specific phenotypic groups.Keywords: phenotypes, chronic obstructive pulmonary disease, desaturator, nocturnal hypoxemia, systemic inflammation, intermittent hypoxia

  14. Histo-Cytometry: in situ multiplex cell phenotyping, quantification, and spatial analysis applied to dendritic cell subset micro-anatomy in lymph nodes

    OpenAIRE

    Gerner, Michael Y.; Kastenmuller, Wolfgang; Ifrim, Ina; Kabat, Juraj; Germain, Ronald N.

    2012-01-01

    Flow cytometry allows highly quantitative analysis of complex dissociated populations at the cost of neglecting their tissue localization. In contrast, conventional microscopy methods provide spatial information, but visualization and quantification of cellular subsets defined by complex phenotypic marker combinations is challenging. Here we describe an analytical microscopy method, "Histo-Cytometry," for visualizing and quantifying phenotypically complex cell populations directly in tissue s...

  15. A Cladistic Analysis of Phenotypic Associations with Haplotypes Inferred from Restriction Endonuclease Mapping. I. Basic Theory and an Analysis of Alcohol Dehydrogenase Activity in Drosophila

    Science.gov (United States)

    Templeton, Alan R.; Boerwinkle, Eric; Sing, Charles F.

    1987-01-01

    Because some genes have been cloned that have a known biochemical or physiological function, genetic variation can be measured in a population at loci that may directly influence a phenotype of interest. With this measured genotype approach, specific alleles or haplotypes in the probed DNA region can be assigned phenotypic effects. In this paper we address several problems encountered in implementing the measured genotype approach with restriction site data. A number of analytical problems arise in part as a consequence of the linkage disequilibrium that is commonly encountered when dealing with small DNA regions: 1) different restriction site polymorphisms are not statistically independent, 2) the sites being measured are not likely to be the direct cause of the associated phenotypic effects, 3) haplotype classes may be phenotypically heterogeneous, and 4) the sites that are most strongly associated with phenotypic effects are not necessarily the most closely linked to the actual genetic cause of the effects. When recombination and gene conversion are rare, the primary cause of linkage disequilibrium is history (mutational origin, genetic drift, hitchhiking, etc.). We deal with historical association directly by producing a cladogram that partially reconstructs the evolutionary history of the present-day haplotype variability. The cladogram defines a nested analysis of variance that simultaneously detects phenotypic effects, localizes the effects within the cladogram, and identifies haplotypes that are potentially heterogeneous in their phenotypic associations. The power of this approach is illustrated by an analysis of the associations between alcohol dehydrogenase (ADH) activity and restriction site variability in a 13-kb fragment surrounding the ADH locus in Drosophila melanogaster. PMID:2822535

  16. A Unifying Model for the Analysis of Phenotypic, Genetic and Geographic Data

    DEFF Research Database (Denmark)

    Guillot, Gilles; Rena, Sabrina; Ledevin, Ronan;

    2012-01-01

    Recognition of evolutionary units (species, populations) requires integrating several kinds of data such as genetic or phenotypic markers or spatial information, in order to get a comprehensive view concerning the dierentiation of the units. We propose a statistical model with a double original a...

  17. Stochastic modeling and experimental analysis of phenotypic switching and survival of cancer cells under stress

    Science.gov (United States)

    Zamani Dahaj, Seyed Alireza; Kumar, Niraj; Sundaram, Bala; Celli, Jonathan; Kulkarni, Rahul

    The phenotypic heterogeneity of cancer cells is critical to their survival under stress. A significant contribution to heterogeneity of cancer calls derives from the epithelial-mesenchymal transition (EMT), a conserved cellular program that is crucial for embryonic development. Several studies have investigated the role of EMT in growth of early stage tumors into invasive malignancies. Also, EMT has been closely associated with the acquisition of chemoresistance properties in cancer cells. Motivated by these studies, we analyze multi-phenotype stochastic models of the evolution of cancers cell populations under stress. We derive analytical results for time-dependent probability distributions that provide insights into the competing rates underlying phenotypic switching (e.g. during EMT) and the corresponding survival of cancer cells. Experimentally, we evaluate these model-based predictions by imaging human pancreatic cancer cell lines grown with and without cytotoxic agents and measure growth kinetics, survival, morphological changes and (terminal evaluation of) biomarkers with associated epithelial and mesenchymal phenotypes. The results derived suggest approaches for distinguishing between adaptation and selection scenarios for survival in the presence of external stresses.

  18. Clinical and genetic analysis of 29 Brazilian patients with Huntington's disease-like phenotype

    Directory of Open Access Journals (Sweden)

    Guilherme Riccioppo Rodrigues

    2011-06-01

    Full Text Available Huntington's disease (HD is a neurodegenerative disorder characterized by chorea, behavioral disturbances and dementia, caused by a pathological expansion of the CAG trinucleotide in the HTT gene. Several patients have been recognized with the typical HD phenotype without the expected mutation. The objective of this study was to assess the occurrence of diseases such as Huntington's disease-like 2 (HDL2, spinocerebellar ataxia (SCA 1, SCA2, SCA3, SCA7, dentatorubral-pallidoluysian atrophy (DRPLA and chorea-acanthocytosis (ChAc among 29 Brazilian patients with a HD-like phenotype. In the group analyzed, we found 3 patients with HDL2 and 2 patients with ChAc. The diagnosis was not reached in 79.3% of the patients. HDL2 was the main cause of the HD-like phenotype in the group analyzed, and is attributable to the African ancestry of this population. However, the etiology of the disease remains undetermined in the majority of the HD negative patients with HD-like phenotype.

  19. Multivariate genetic analysis of atopy phenotypes in a selected sample of twins

    DEFF Research Database (Denmark)

    Thomsen, SF; Ulrik, Charlotte Suppli; Kyvik, KO;

    2006-01-01

    , to a large extent, a common genetic background. In particular, upper and lower respiratory symptoms seem to be different phenotypic expressions of a common set of genes. These results add new insight into the origins of clinical heterogeneity within atopy and should stimulate the search for pleiotropic genes...

  20. UPPER BOUND ANALYSIS OF HORIZONTALLY EMBEDDED ANCHORS BASED ON BLOCK SET MECHANISM%基于组合块体集的浅埋条形锚板上限分析

    Institute of Scientific and Technical Information of China (English)

    余生兵; 黄茂松

    2011-01-01

    基于极限分析法的基本原理以及集成与组合的思路,推导组合块体集的内能耗散和重力做功,运用组合的思想构造斜坡地形下浅埋水平条形锚板的运动许可速度场.首先分析地表水平条件下法向受力水平条形锚板抗拔承载力,并与文献中已有解和模型试验进行对比,验证块体集上限法的优越性.然后详细研究斜坡地形条件下土体重度、不排水抗剪强度、斜坡倾角等因素对条形锚板抗拔承载力和破坏面形状的影响.分析结果表明:重力叠加法并不适用于斜坡地形情况;随着斜坡倾角的增大,锚板的破坏面向坡角方向倾斜;锚板埋深比越大,斜坡倾角的影响也越显著.块体集上限分析方法构造简单,求解快捷,能够为工程设计提供依据.%Based on the bound theorems of limit analysis, admissible velocity field of horizontal strip anchor is constructed by using a combination of several rotational block sets. An application to upper bound analysis of vertically loaded strip anchors on horizontal ground surface is given first to illustrate the utility and effectiveness of the proposed method, and include detailed comparisons with results obtained from other approaches. Then the pull-out capacities of strip anchors in undrained clay with sloping ground surface are analyzed. Pull-out capacity and failure surface characteristics under different embedment ratios, undrained strength, inclined angles of slopes and weight of soil are studied. The results show that the superposition of gravity is not applicable to the case of sloping ground surface. The variation of slope angle has a significant impact on failure surface. The block set mechanism is based on a very simple concept which is integration and combination and can be a reference for the practical design.

  1. Optimizing the phenotyping of rodent ASD models: enrichment analysis of mouse and human neurobiological phenotypes associated with high-risk autism genes identifies morphological, electrophysiological, neurological, and behavioral features

    Directory of Open Access Journals (Sweden)

    Buxbaum Joseph D

    2012-02-01

    in ASD genes result in defined groups of changes in mouse models and support a broad neurobiological approach to phenotyping rodent models for ASD, with a focus on biochemistry and molecular biology, brain and neuronal morphology, and electrophysiology, as well as both neurological and additional behavioral analyses. Analysis of human phenotypes associated with these genes reinforced these conclusions, supporting face validity for these approaches to phenotyping of ASD models. Such phenotyping is consistent with the successes in Fmr1 knockout mice, in which morphological changes recapitulated human findings and electrophysiological deficits resulted in molecular insights that have since led to clinical trials. We propose both broad domains and, based on expert review of more than 50 publications in each of the four neurobiological domains, specific tests to be applied to rodent models of ASD.

  2. Curative analysis of suture anchors in repairing delayed Achilles tendon rupture%带线锚钉修复陈旧性跟腱断裂的疗效

    Institute of Scientific and Technical Information of China (English)

    祁洁; 卫文博; 段亮; 李伟伟

    2015-01-01

    目的 分析带线锚钉修复陈旧性跟腱断裂的临床疗效. 方法 选择2010年1月-2013年12月收治的陈旧性跟腱断裂患者23例,其中男19例,女4例;年龄35~ 53岁,平均43岁.均为单侧损伤,其中左足5例,右足18例.受伤至手术时间21 ~ 40 d,平均26.3 d.B超确诊10例,MRI确诊13例.所有患者均采用带线锚钉修复断裂跟腱,术后无须外支具固定,早期开始功能锻炼.观察伤口并发症情况,术后6,12,18,24个月计算踝关节屈伸范围、美国足踝外科协会踝-后足评分系统(AOFAS)评分、双侧小腿最大周径,观察跟腱再断裂和跛行步态,应用Lunsford-Perry提踵能力测试衡量跟腱肌力恢复情况. 结果 术后随访24个月,所有患者切口均Ⅰ期愈合,无腓肠神经损伤表现,跟腱修复部位与皮肤无粘连,无深部感染,随访期间无跟腱再断裂发生.术后6个月关节功能评估,踝背伸10.8°(9~ 15°),跖屈43.8°(40 ~48°),与健侧比较差异无统计学意义(P>0.05).AOFAS评分术前与术后比较差异有统计学意义(P<0.01).小腿最大周径,健侧为38.2 cm,患侧为35.8 cm,虽然差异有统计学意义,但差值小于3 cm.所有患者可以顺利完成25次提踵活动.4例患者行走时有轻微跛行,术后12个月所有患者步态正常,踝关节活动范围小腿最大周径与健侧差异无统计学意义(P>0.05). 结论 利用带线锚钉修复陈旧性跟腱断裂,断端吻合牢固,缝线切割力小,皮肤切口并发症少,无须外固定,术后可以早期开始功能锻炼,踝关节功能恢复快.%Objective To summarize the clinical efficacy of suture anchors in repairing the delayed Achilles tendon rupture.Methods From January 2010 to December 2013,23 patients with delayed Achilles tendon rupture were treated using the suture anchors.There were 19 males and 4 females,at mean age of 43 years (range,35-53 years).Injury on the left side occurred in 5 patients and right side in 18 patients.Mean time

  3. Oriented circular dichroism analysis of chiral surface-anchored metal-organic frameworks grown by liquid-phase epitaxy and upon loading with chiral guest compounds

    KAUST Repository

    Gu, Zhigang

    2014-06-17

    Oriented circular dichroism (OCD) is explored and successfully applied to investigate chiral surface-anchored metal-organic frameworks (SURMOFs) based on camphoric acid (D- and Lcam) with the composition [Cu2(Dcam) 2x(Lcam)2-2x(dabco)]n (dabco=1,4-diazabicyclo- [2.2.2]-octane). The three-dimensional chiral SURMOFs with high-quality orientation were grown on quartz glass plates by using a layer-by-layer liquid-phase epitaxy method. The growth orientation, as determined by X-ray diffraction (XRD), could be switched between the [001] and [110] direction by using either OH- or COOH-terminated substrates. These SURMOFs were characterized by using OCD, which confirmed the ratio as well as the orientation of the enantiomeric linker molecules. Theoretical computations demonstrate that the OCD band intensities of the enantiopure [Cu2(Dcam)2(dabco)] n grown in different orientations are a direct result of the anisotropic nature of the chiral SURMOFs. Finally, the enantiopure [Cu 2(Dcam)2(dabco)]n and [Cu2(Lcam) 2(dabco)]n SURMOFs were loaded with the two chiral forms of ethyl lactate [(+)-ethyl-D-lactate and (-)-ethyl-L-lactate)]. An enantioselective enrichment of >60 % was observed by OCD when the chiral host scaffold was loaded from the racemic mixture. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  4. Identification of Vaccine-Altered Circulating B Cell Phenotypes Using Mass Cytometry and a Two-Step Clustering Analysis.

    Science.gov (United States)

    Pejoski, David; Tchitchek, Nicolas; Rodriguez Pozo, André; Elhmouzi-Younes, Jamila; Yousfi-Bogniaho, Rahima; Rogez-Kreuz, Christine; Clayette, Pascal; Dereuddre-Bosquet, Nathalie; Lévy, Yves; Cosma, Antonio; Le Grand, Roger; Beignon, Anne-Sophie

    2016-06-01

    Broadening our understanding of the abundance and phenotype of B cell subsets that are induced or perturbed by exogenous Ags will improve the vaccine evaluation process. Mass cytometry (CyTOF) is being used to increase the number of markers that can be investigated in single cells, and therefore characterize cell phenotype at an unprecedented level. We designed a panel of CyTOF Abs to compare the B cell response in cynomolgus macaques at baseline, and 8 and 28 d after the second homologous immunization with modified vaccinia virus Ankara. The spanning-tree progression analysis of density-normalized events (SPADE) algorithm was used to identify clusters of CD20(+) B cells. Our data revealed the phenotypic complexity and diversity of circulating B cells at steady-state and significant vaccine-induced changes in the proportions of some B cell clusters. All SPADE clusters, including those altered quantitatively by vaccination, were characterized phenotypically and compared using double hierarchical clustering. Vaccine-altered clusters composed of previously described subsets including CD27(hi)CD21(lo) activated memory and CD27(+)CD21(+) resting memory B cells, and subphenotypes with novel patterns of marker coexpression. The expansion, followed by the contraction, of a single memory B cell SPADE cluster was positively correlated with serum anti-vaccine Ab titers. Similar results were generated by a different algorithm, automatic classification of cellular expression by nonlinear stochastic embedding. In conclusion, we present an in-depth characterization of B cell subphenotypes and proportions, before and after vaccination, using a two-step clustering analysis of CyTOF data, which is suitable for longitudinal studies and B cell subsets and biomarkers discovery. PMID:27183591

  5. Phenotypic malignant changes and untargeted lipidomic analysis of long-term exposed prostate cancer cells to endocrine disruptors

    Energy Technology Data Exchange (ETDEWEB)

    Bedia, Carmen, E-mail: carmen.bedia@idaea.csic.es; Dalmau, Núria, E-mail: nuria.dalmau@idaea.csic.es; Jaumot, Joaquim, E-mail: joaquim.jaumot@idaea.csic.es; Tauler, Romà, E-mail: roma.tauler@idaea.csic.es

    2015-07-15

    Endocrine disruptors (EDs) are a class of environmental toxic molecules able to interfere with the normal hormone metabolism. Numerous studies involve EDs exposure to initiation and development of cancers, including prostate cancer. In this work, three different EDs (aldrin, aroclor 1254 and chlorpyrifos (CPF)) were investigated as potential inducers of a malignant phenotype in DU145 prostate cancer cells after a chronic exposure. Epithelial to mesenchymal transition (EMT) induction, proliferation, migration, colony formation and release of metalloproteinase 2 (MMP-2) were analyzed in 50-day exposed cells to the selected EDs. As a result, aldrin and CPF exposure led to an EMT induction (loss of 16% and 14% of E-cadherin levels, respectively, compared to the unexposed cells). Aroclor and CPF presented an increased migration (134% and 126%, respectively), colony formation (204% and 144%, respectively) and MMP-2 release (137% in both cases) compared to the unexposed cells. An untargeted lipidomic analysis was performed to decipher the lipids involved in the observed transformations. As general results, aldrin exposure showed a global decrease in phospholipids and sphingolipids, and aroclor and CPF showed an increase of certain phospholipids, glycosphingolipids as well as a remarkable increase of some cardiolipin species. Furthermore, the three exposures resulted in an increase of some triglyceride species. In conclusion, some significant changes in lipids were identified and thus we postulate that some lipid compounds and lipid metabolic pathways could be involved in the acquisition of the malignant phenotype in exposed prostate cancer cells to the selected EDs. - Highlights: • Aldrin, aroclor and chlorpyrifos induced an aggressive phenotype in DU145 cells. • An untargeted lipidomic analysis has been performed on chronic exposed cells. • Lipidomic results showed changes in specific lipid species under chronic exposure. • These lipids may have a role in the

  6. Deciphering the mechanisms of developmental disorders: phenotype analysis of embryos from mutant mouse lines.

    Science.gov (United States)

    Wilson, Robert; McGuire, Christina; Mohun, Timothy

    2016-01-01

    The Deciphering the Mechanisms of Developmental Disorders (DMDD) consortium is a research programme set up to identify genes in the mouse, which if mutated (or knocked-out) result in embryonic lethality when homozygous, and initiate the study of why disruption of their function has such profound effects on embryo development and survival. The project uses a combination of comprehensive high resolution 3D imaging and tissue histology to identify abnormalities in embryo and placental structures of embryonic lethal lines. The image data we have collected and the phenotypes scored are freely available through the project website (http://dmdd.org.uk). In this article we describe the web interface to the images that allows the embryo data to be viewed at full resolution in different planes, discuss how to search the database for a phenotype, and our approach to organising the data for an embryo and a mutant line so it is easy to comprehend and intuitive to navigate. PMID:26519470

  7. Deciphering the mechanisms of developmental disorders: phenotype analysis of embryos from mutant mouse lines.

    Science.gov (United States)

    Wilson, Robert; McGuire, Christina; Mohun, Timothy

    2016-01-01

    The Deciphering the Mechanisms of Developmental Disorders (DMDD) consortium is a research programme set up to identify genes in the mouse, which if mutated (or knocked-out) result in embryonic lethality when homozygous, and initiate the study of why disruption of their function has such profound effects on embryo development and survival. The project uses a combination of comprehensive high resolution 3D imaging and tissue histology to identify abnormalities in embryo and placental structures of embryonic lethal lines. The image data we have collected and the phenotypes scored are freely available through the project website (http://dmdd.org.uk). In this article we describe the web interface to the images that allows the embryo data to be viewed at full resolution in different planes, discuss how to search the database for a phenotype, and our approach to organising the data for an embryo and a mutant line so it is easy to comprehend and intuitive to navigate.

  8. Human breath analysis may support the existence of individual metabolic phenotypes.

    Directory of Open Access Journals (Sweden)

    Pablo Martinez-Lozano Sinues

    Full Text Available The metabolic phenotype varies widely due to external factors such as diet and gut microbiome composition, among others. Despite these temporal fluctuations, urine metabolite profiling studies have suggested that there are highly individual phenotypes that persist over extended periods of time. This hypothesis was tested by analyzing the exhaled breath of a group of subjects during nine days by mass spectrometry. Consistent with previous metabolomic studies based on urine, we conclude that individual signatures of breath composition exist. The confirmation of the existence of stable and specific breathprints may contribute to strengthen the inclusion of breath as a biofluid of choice in metabolomic studies. In addition, the fact that the method is rapid and totally non-invasive, yet individualized profiles can be tracked, makes it an appealing approach.

  9. AMMI analysis to evaluate the adaptability and phenotypic stability of sugarcane genotypes

    Directory of Open Access Journals (Sweden)

    Luís Cláudio Inácio da Silveira

    2013-02-01

    Full Text Available Sugarcane (Saccharum sp. is one of the most important crops in Brazil. The high demand for sugarcane-derived products has stimulated the expansion of sugarcane cultivation in recent years, exploring different environments. The adaptability and the phenotypic stability of sugarcane genotypes in the Minas Gerais state, Brazil, were evaluated based on the additive main effects and multiplicative interaction (AMMI method. We evaluated 15 genotypes (13 clones and two checks: RB867515 and RB72454 in nine environments. The average of two cuttings for the variable tons of pol per hectare (TPH measure was used to discriminate genotypes. Besides the check RB867515 (20.44 t ha-1, the genotype RB987935 showed a high average TPH (20.71 t ha-1, general adaptability and phenotypic stability, and should be suitable for cultivation in the target region. The AMMI method allowed for easy visual identification of superior genotypes for each set of environments.

  10. Energy analysis method for slopes reinforcing with prestressed anchor cables based on minimum energy principle of instability state%基于失稳状态耗能最小原理的预应力锚索加固边坡稳定性上限解析

    Institute of Scientific and Technical Information of China (English)

    赵炼恒; 罗强; 李亮; 杨峰

    2013-01-01

    The energy analysis method for stability analysis of slope reinforced by prestressed anchor cables is presented based on geotechnical plastic limit analysis theory, in which the reinforcing effect of prestressed anchor cables is taken into account. The iteration interior point method and sequential quadratic programming method (SQP) are used to calculate the objective function of safety factor incorporating the strength reduction technique and the minimum energy principle of the instability state. Typical example calculation and analysis show that the location of prestressed anchor cable has significant influence on slope safety factor, the location of critical slip surface and the prestressed anchor cable length. Considering the influences of the location of prestressed anchor cable on slope safety factor and length of anchor, the optimal settings of single anchor cable should be located in the lower slope region. Slope reinforced by multi-prestressed-anchor-cables can guarantee the security reserve of slope, and can avoid the local stability problem of slope effectively.%基于岩土塑性极限分析上限理论的基本原理,考虑预应力锚索的加固效应,分析了单预应力锚索加固措施条件下边坡的稳定性特性,并由此探讨了多预应力锚索共同加固边坡的稳定性能量分析方法.结合强度折减技术,采用内点迭代方法和序列二次规划优化迭代法对锚固边坡安全系数目标函数进行了能量耗散最小化意义上的优化计算.典型算例的分析计算表明:锚索加固效应可以有效地提高边坡的稳定性,预应力锚索设置位置对边坡安全系数、临界滑裂面位置和锚索长度有显著影响.综合考虑锚索设置位置对边坡安全系数和锚索长度的影响,单锚索的最优设置位置应位于边坡中下部区域.采用多排锚索加固既可以保证边坡的安全储备,也可有效避免局部稳定性问题.

  11. SparSNP: Fast and memory-efficient analysis of all SNPs for phenotype prediction

    OpenAIRE

    Abraham Gad; Kowalczyk Adam; Zobel Justin; Inouye Michael

    2012-01-01

    Abstract Background A central goal of genomics is to predict phenotypic variation from genetic variation. Fitting predictive models to genome-wide and whole genome single nucleotide polymorphism (SNP) profiles allows us to estimate the predictive power of the SNPs and potentially develop diagnostic models for disease. However, many current datasets cannot be analysed with standard tools due to their large size. Results We introduce SparSNP, a tool for fitting lasso linear models for massive S...

  12. Clinical and genetic analysis of 29 Brazilian patients with Huntington’s disease-like phenotype

    OpenAIRE

    Guilherme Riccioppo Rodrigues; Walker, Ruth H.; Benedikt Bader; Adrian Danek; Alexis Brice; Cécile Cazeneuve; Odile Russaouen; Iscia Lopes-Cendes; Wilson Marques Jr; Vitor Tumas

    2011-01-01

    Huntington’s disease (HD) is a neurodegenerative disorder characterized by chorea, behavioral disturbances and dementia, caused by a pathological expansion of the CAG trinucleotide in the HTT gene. Several patients have been recognized with the typical HD phenotype without the expected mutation. The objective of this study was to assess the occurrence of diseases such as Huntington’s disease-like 2 (HDL2), spinocerebellar ataxia (SCA) 1, SCA2, SCA3, SCA7, dentatorubral-pallidol...

  13. In vitro analysis of the invasive phenotype of SUM 149, an inflammatory breast cancer cell line

    Directory of Open Access Journals (Sweden)

    Dharmawardhane Suranganie F

    2005-04-01

    Full Text Available Abstract Background Inflammatory breast cancer (IBC is the most lethal form of locally invasive breast cancer known. However, very little information is available on the cellular mechanisms responsible for manifestation of the IBC phenotype. To understand the unique phenotype of IBC, we compared the motile and adhesive interactions of an IBC cell line, SUM 149, to the non-IBC cell line SUM 102. Results Our results demonstrate that both IBC and non-IBC cell lines exhibit similar adhesive properties to basal lamina, but SUM 149 showed a marked increase in adhesion to collagen I. In vitro haptotaxis assays demonstrate that SUM 149 was less invasive, while wound healing assays show a less in vitro migratory phenotype for SUM 149 cells relative to SUM 102 cells. We also demonstrate a role for Rho and E-cadherin in the unique invasive phenotype of IBC. Immunoblotting reveals higher E-cadherin and RhoA expression in the IBC cell line but similar RhoC expression. Rhodamine phalloidin staining demonstrates increased formation of actin stress fibers and larger focal adhesions in SUM 149 relative to the SUM 102 cell line. Conclusion The observed unique actin and cellular architecture as well as the invasive and adhesive responses to the extracellular matrix of SUM 149 IBC cells suggest that the preference of IBC cells for connective tissue, possibly a mediator important for the vasculogenic mimicry via tubulogenesis seen in IBC pathological specimens. Overexpression of E-cadherin and RhoA may contribute to passive dissemination of IBC by promoting cell-cell adhesion and actin cytoskeletal structures that maintain tissue integrity. Therefore, we believe that these findings indicate a passive metastatic mechanism by which IBC cells invade the circulatory system as tumor emboli rather than by active migratory mechanisms.

  14. Factor analysis demonstrates a common schizoidal phenotype within autistic and schizotypal tendency: Implications for neuroscientific studies

    OpenAIRE

    Talitha Caitlyn Ford; David Philip Crewther

    2014-01-01

    Behavioral and cognitive dysfunction, particularly social and communication impairments, are shared between autism and schizophrenia spectrum disorders, while evidence for a diametric autism-positive schizophrenia symptom profile is inconsistent. We investigated the shared phenotype at a personality trait level, particularly its resemblance to schizoid personality disorder, as well as differential aspects of the autism–schizophrenia model. Items of the autism spectrum quotient (AQ) and schizo...

  15. Morphological phenotypic dispersion of garlic cultivars by cluster analysis and multidimensional scaling

    Directory of Open Access Journals (Sweden)

    Anderson Rodrigo da Silva

    2014-02-01

    Full Text Available Multivariate techniques have become a useful tool for studying the phenotypic diversity of Germplasm Bank accessions, since they make it possible to combine a variety of different information from these accessions. This study aimed to characterize the phenotypic dispersion of garlic (Allium sativum L. using two multivariate techniques with different objective functions. Twenty accessions were morphologically characterized for bulb diameter, length, and weight; number of cloves per bulb; number of leaves per plant; and leaf area. Techniques based on generalized quadratic distance of Mahalanobis, UPGMA (Unweighted Pair Group Method with Arithmetic Mean clustering, and nMDS (nonmetrric MultiDimensional Scaling were applied and the relative importance of variables quantified. The two multivariate techniques were capable of identifying cultivars with different characteristics, mainly regarding their classification in subgroups of common garlic or noble garlic, according to the number of cloves per bulb. The representation of the phenotypic distance of cultivars by multidimensional scaling was slightly more effective than that with UPGMA clustering.

  16. A genome-wide analysis of promoter-mediated phenotypic noise in Escherichia coli.

    Science.gov (United States)

    Silander, Olin K; Nikolic, Nela; Zaslaver, Alon; Bren, Anat; Kikoin, Ilya; Alon, Uri; Ackermann, Martin

    2012-01-01

    Gene expression is subject to random perturbations that lead to fluctuations in the rate of protein production. As a consequence, for any given protein, genetically identical organisms living in a constant environment will contain different amounts of that particular protein, resulting in different phenotypes. This phenomenon is known as "phenotypic noise." In bacterial systems, previous studies have shown that, for specific genes, both transcriptional and translational processes affect phenotypic noise. Here, we focus on how the promoter regions of genes affect noise and ask whether levels of promoter-mediated noise are correlated with genes' functional attributes, using data for over 60% of all promoters in Escherichia coli. We find that essential genes and genes with a high degree of evolutionary conservation have promoters that confer low levels of noise. We also find that the level of noise cannot be attributed to the evolutionary time that different genes have spent in the genome of E. coli. In contrast to previous results in eukaryotes, we find no association between promoter-mediated noise and gene expression plasticity. These results are consistent with the hypothesis that, in bacteria, natural selection can act to reduce gene expression noise and that some of this noise is controlled through the sequence of the promoter region alone.

  17. A genome-wide analysis of promoter-mediated phenotypic noise in Escherichia coli.

    Directory of Open Access Journals (Sweden)

    Olin K Silander

    2012-01-01

    Full Text Available Gene expression is subject to random perturbations that lead to fluctuations in the rate of protein production. As a consequence, for any given protein, genetically identical organisms living in a constant environment will contain different amounts of that particular protein, resulting in different phenotypes. This phenomenon is known as "phenotypic noise." In bacterial systems, previous studies have shown that, for specific genes, both transcriptional and translational processes affect phenotypic noise. Here, we focus on how the promoter regions of genes affect noise and ask whether levels of promoter-mediated noise are correlated with genes' functional attributes, using data for over 60% of all promoters in Escherichia coli. We find that essential genes and genes with a high degree of evolutionary conservation have promoters that confer low levels of noise. We also find that the level of noise cannot be attributed to the evolutionary time that different genes have spent in the genome of E. coli. In contrast to previous results in eukaryotes, we find no association between promoter-mediated noise and gene expression plasticity. These results are consistent with the hypothesis that, in bacteria, natural selection can act to reduce gene expression noise and that some of this noise is controlled through the sequence of the promoter region alone.

  18. PFGE and antibiotic susceptibility phenotype analysis of Pseudomonas aeruginosa strain chronically infecting Cystic Fibrosis patients

    Directory of Open Access Journals (Sweden)

    Giovanna Pulcrano

    2008-09-01

    Full Text Available Pseudomonas aeruginosa is the leading cause of chronic lung infection and following pulmonary worsening of cystic fibrosis patients. To verify whether bacterial modifications regarding motility, mucoidy, and serum susceptibility proceeded from an adaptation to chronic infection or a replacement with a new strain, sequential P. aeruginosa isolates of known phenotype collected from 5 cystic fibrosis patients were typed by pulsed-field gel electophoresis (PFGE. Antimicrobial susceptibility testing of all isolates was performed by the disc diffusion method. PFGE typing demonstrated that strains dissimilar in colony morphotype and of different antibiotic susceptibility patterns could be of the same genotype. Some patients were colonized with a rather constant P. aeruginosa flora, with strains of different phenotypes but of one genotype. Instead, some patients may be colonized by more than one genotype. Secretion of mucoid exopolysaccharide and acquisition of a new antibiotic susceptibility phenotype in these strain appear to evolve during chronic colonization in cystic fibrosis patients from specific adaptation to infection rather than from acquisition of new bacterial strains.

  19. Shifting Nominal Anchors: The Experience of Mexico

    OpenAIRE

    Leonardo Leiderman; Nissan Liviatan; Alfredo Thorne

    1995-01-01

    In the mid-1980’s Mexico successfully brought down its high rate of inflation by using the exchange rate as nominal anchor in combination with strict fiscal discipline, tight monetary policy, and incomes policy. This paper discusses the role of exchange rate policy as nominal anchor in Mexico and develops the inflation target as the monetary framework for anchoring prices. It also describes how Mexico is applying this frame work while shifting to a more flexible exchange regime and discusses ...

  20. A lunar/Martian anchor emplacement system

    Science.gov (United States)

    Clinton, Dustin; Holt, Andrew; Jantz, Erik; Kaufman, Teresa; Martin, James; Weber, Reed

    On the Moon or Mars, it is necessary to have an anchor, or a stable, fixed point able to support the forces necessary to rescue a stuck vehicle, act as a stake for a tent in a Martian gale, act as a fulcrum in the erection of general construction poles, or support tent-like regolith shields. The anchor emplacement system must be highly autonomous. It must supply the energy and stability for anchor deployment. The goal of the anchor emplacement system project is to design and build a prototype anchor and to design a conceptual anchor emplacement system. Various anchors were tested in a 1.3 cubic meter test bed containing decomposed granite. A simulated lunar soil was created by adjusting the moisture and compaction characteristics of the soil. We conducted tests on emplacement torque, amount of force the anchor could withstand before failure, anchor pull out force at various angles, and soil disturbances caused by placing the anchor. A single helix auger anchor performed best in this test bed based on energy to emplace, and the ultimate holding capacity. The anchor was optimized for ultimate holding capacity, minimum emplacement torque, and minimum soil disturbance in sandy soils yielding the following dimensions: helix diameter (4.45 cm), pitch (1.27 cm), blade thickness (0.15 cm), total length (35.56 cm), shaft diameter (0.78 cm), and a weight of 212.62 g. The experimental results showed that smaller diameter, single-helix augers held more force than larger diameter augers for a given depth. The emplacement system consists of a flywheel and a motor for power, sealed in a protective box supported by four legs. The flywheel system was chosen over a gear system based on its increased reliability in the lunar environment.

  1. Capital Asset Pricing Model Adjusted for Anchoring

    OpenAIRE

    Hammad, Siddiqi

    2015-01-01

    I show that adjusting CAPM for anchoring provides a unified explanation for the size, value, and momentum effects. Anchoring adjusted CAPM (ACAPM) predicts that stock splits are associated with positive abnormal returns and an increase in return volatility, whereas the reverse stock-splits are associated with negative abnormal returns and a fall in return volatility. Existing empirical evidence strongly supports these predictions. Anchoring has the effect of pushing up the equity premium, a ...

  2. Identifiable Phenotyping using Constrained Non-Negative Matrix Factorization

    OpenAIRE

    Joshi, Shalmali; Gunasekar, Suriya; Sontag, David; Ghosh, Joydeep

    2016-01-01

    This work proposes a new algorithm for automated and simultaneous phenotyping of multiple co-occurring medical conditions, also referred as comorbidities, using clinical notes from the electronic health records (EHRs). A basic latent factor estimation technique of non-negative matrix factorization (NMF) is augmented with domain specific constraints to obtain sparse latent factors that are anchored to a fixed set of chronic conditions. The proposed anchoring mechanism ensures a one-to-one iden...

  3. Anchored Lagrangian submanifolds and their Floer theory

    CERN Document Server

    Fukaya, Kenji; Ohta, Hiroshi; Ono, Kaoru

    2009-01-01

    We introduce the notion of (graded) anchored Lagrangian submanifolds and use it to study the filtration of Floer' s chain complex. We then obtain an anchored version of Lagrangian Floer homology and its (higher) product structures. They are somewhat different from the more standard non-anchored version. The anchored version discussed in this paper is more naturally related to the variational picture of Lagrangian Floer theory and so to the likes of spectral invariants. We also discuss rationality of Lagrangian submanifold and reduction of the coefficient ring of Lagrangian Floer cohomology of thereof.

  4. The rice growth image files - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us The Rice Growth...e Site Policy | Contact Us The rice growth image files - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive ...

  5. A large multicenter analysis of CTGF -945 promoter polymorphism does not confirm association with Systemic Sclerosis susceptibility or phenotype

    Science.gov (United States)

    Rueda, B; Simeon, C; Hesselstrand, R; Herrick, A; Worthington, J; Ortego-Centeno, N; Riemekasten, G; Fonollosa, V; Vonk, MC; van den Hoogen, FHJ; Sanchez-Román, J; Aguirre-Zamorano, MA; García-Portales, R; Pros, A; Camps, MT; Gonzalez-Gay, MA; Gonzalez-Escribano, MF; Coenen, MJ; Lambert, N; Nelson, JL; Radstake, TRDJ; Martin, J.

    2009-01-01

    Objective In this work we conducted a replication study to investigate whether the -945 CTGF genetic variant is associated with SSc susceptibility or specific SSc phenotype. Methods The study population comprised of 1180 SSc patients and 1784 healthy controls from seven independent case-control sets of European ancestry (Spanish, French, Dutch, German, British, Swedish and North American). The –945 CTGF genetic variant was genotyped using a Taqman 5′ allelic discrimination assay. Results First we conducted an independent association study that revealed in all case-control cohorts under study no association of the CTGF -945 polymorphism with SSc susceptibility. These findings were confirmed by a meta-analysis that reached a pooled OR of 1.12 (95 % CI 0.99–1.25, P=0.06). In addition, the possible contribution of the -945 CTGF genetic variant to SSc phenotype was investigated. However, stratification according to SSc subtypes (limited or diffuse), selective autoantibodies (antitopoisomerase I or anti-centromere) or pulmonary involvement reached no statistically significant skewing. Conclusion Our results do not confirm previous findings and suggest that the CTGF –945 promoter polymorphism does not play a major role in SSc susceptibility or clinical phenotype. PMID:19054816

  6. Anchoring contextual analysis in health policy and systems research: A narrative review of contextual factors influencing health committees in low and middle income countries.

    Science.gov (United States)

    George, Asha; Scott, Kerry; Garimella, Surekha; Mondal, Shinjini; Ved, Rajani; Sheikh, Kabir

    2015-05-01

    Health committees, councils or boards (HCs) mediate between communities and health services in many health systems. Despite their widespread prevalence, HC functions vary due to their diversity and complexity, not least because of their context specific nature. We undertook a narrative review to better understand the contextual features relevant to HCs, drawing from Scopus and the internet. We found 390 English language articles from journals and grey literature since 1996 on health committees, councils and boards. After screening with inclusion and exclusion criteria, we focused on 44 articles. Through an iterative process of exploring previous attempts at understanding context in health policy and systems research (HPSR) and the HC literature, we developed a conceptual framework that delineates these contextual factors into four overlapping spheres (community, health facilities, health administration, society) with cross-cutting issues (awareness, trust, benefits, resources, legal mandates, capacity-building, the role of political parties, non-governmental organizations, markets, media, social movements and inequalities). While many attempts at describing context in HPSR result in empty arenas, generic lists or amorphous detail, we suggest anchoring an understanding of context to a conceptual framework specific to the phenomena of interest. By doing so, our review distinguishes between contextual elements that are relatively well understood and those that are not. In addition, our review found that contextual elements are dynamic and porous in nature, influencing HCs but also being influenced by them due to the permeability of HCs. While reforms focus on tangible HC inputs and outputs (training, guidelines, number of meetings held), our review of contextual factors highlights the dynamic relationships and broader structural elements that facilitate and/or hinder the role of health committees in health systems. Such an understanding of context points to its

  7. Anchoring contextual analysis in health policy and systems research: A narrative review of contextual factors influencing health committees in low and middle income countries.

    Science.gov (United States)

    George, Asha; Scott, Kerry; Garimella, Surekha; Mondal, Shinjini; Ved, Rajani; Sheikh, Kabir

    2015-05-01

    Health committees, councils or boards (HCs) mediate between communities and health services in many health systems. Despite their widespread prevalence, HC functions vary due to their diversity and complexity, not least because of their context specific nature. We undertook a narrative review to better understand the contextual features relevant to HCs, drawing from Scopus and the internet. We found 390 English language articles from journals and grey literature since 1996 on health committees, councils and boards. After screening with inclusion and exclusion criteria, we focused on 44 articles. Through an iterative process of exploring previous attempts at understanding context in health policy and systems research (HPSR) and the HC literature, we developed a conceptual framework that delineates these contextual factors into four overlapping spheres (community, health facilities, health administration, society) with cross-cutting issues (awareness, trust, benefits, resources, legal mandates, capacity-building, the role of political parties, non-governmental organizations, markets, media, social movements and inequalities). While many attempts at describing context in HPSR result in empty arenas, generic lists or amorphous detail, we suggest anchoring an understanding of context to a conceptual framework specific to the phenomena of interest. By doing so, our review distinguishes between contextual elements that are relatively well understood and those that are not. In addition, our review found that contextual elements are dynamic and porous in nature, influencing HCs but also being influenced by them due to the permeability of HCs. While reforms focus on tangible HC inputs and outputs (training, guidelines, number of meetings held), our review of contextual factors highlights the dynamic relationships and broader structural elements that facilitate and/or hinder the role of health committees in health systems. Such an understanding of context points to its

  8. Canine hip dysplasia: phenotypic scoring and the role of estimated breeding value analysis.

    Science.gov (United States)

    Soo, M; Worth, Aj

    2015-03-01

    Canine hip dysplasia (CHD) is a developmental orthopaedic disease of the coxofemoral joints with a multifactorial mode of inheritance. Multiple gene effects are influenced by environmental factors; therefore, it is unlikely that a simple genetic screening test with which to identify susceptible individuals will be developed in the near future. In the absence of feasible methods for objectively quantifying clinical CHD, radiographic techniques have been developed and widely used to identify dogs for breeding which are less affected by the disease. A hip-extended ventrodorsal view of the pelvis has been traditionally used to identify dogs with subluxation and/or osteoarthritis of the coxofemoral joints. More recently, there has been emphasis on the role of coxofemoral joint laxity as a determinant of CHD and methods have been developed to measure passive hip laxity. Though well-established worldwide, the effectiveness of traditional phenotypic scoring schemes in reducing the prevalence of CHD has been variable. The most successful implementation of traditional CHD scoring has occurred in countries or breeding colonies with mandatory scoring and open registries with access to pedigree records. Several commentators have recommended that for quantitative traits like CHD, selection of breeding stock should be based on estimated breeding values (EBV) rather than individual hip score/grade. The EBV is a reflection of the genetic superiority of an animal compared to its counterparts and is calculated from the phenotype of an individual and its relatives and their pedigree relationship. Selecting breeding stock on the basis of a dog's genetic merit, ideally based on a highly predictive phenotype, will confer the breeder with greater selection power, accelerate genetic improvement towards better hip conformation and thus more likely decrease the prevalence of CHD.

  9. Are clear cell carcinomas of the ovary and endometrium phenotypically identical? A proteomic analysis.

    Science.gov (United States)

    Fata, Cynthia R; Seeley, Erin H; Desouki, Mohamed M; Du, Liping; Gwin, Katja; Hanley, Krisztina Z; Hecht, Jonathan L; Jarboe, Elke A; Liang, Sharon X; Parkash, Vinita; Quick, Charles M; Zheng, Wenxin; Shyr, Yu; Caprioli, Richard M; Fadare, Oluwole

    2015-10-01

    Phenotypic differences between otherwise similar tumors arising from different gynecologic locations may be highly significant in understanding the underlying driver molecular events at each site and may potentially offer insights into differential responses to treatment. In this study, the authors sought to identify and quantify phenotypic differences between ovarian clear cell carcinoma (OCCC) and endometrial clear cell carcinoma (ECCC) using a proteomic approach. Tissue microarrays were constructed from tumor samples of 108 patients (54 ECCCs and 54 OCCCs). Formalin-fixed samples on microarray slides were analyzed by matrix-assisted laser desorption/ionization mass spectrometry, and 730 spectral peaks were generated from the combined data set. A linear mixed-effect model with random intercept was used to generate 93 (12.7%) peaks that were significantly different between OCCCs and ECCCs at the fold cutoffs of 1.5 and 0.667 and an adjusted P value cutoff of 1.0 × 10(-10). Liquid chromatography-tandem mass spectrometry was performed on selected cores from each group, and peptides identified therefrom were compared with lists of statistically significant peaks from the aforementioned linear mixed-effects model to find matches within 0.2 Da. A total of 53 candidate proteins were thus identified as being differentially expressed in OCCCs and ECCCs, 45 (85%) of which were expressed at higher levels in ECCCs than OCCCs. These proteins were functionally diverse and did not highlight a clearly dominant cellular theme or molecular pathway. Although ECCCs and OCCCs are very similar, some phenotypic differences are demonstrable. Additional studies of these differentially expressed proteins may ultimately clarify the significance of these differences. PMID:26243671

  10. Phenotype definition in epilepsy.

    Science.gov (United States)

    Winawer, Melodie R

    2006-05-01

    Phenotype definition consists of the use of epidemiologic, biological, molecular, or computational methods to systematically select features of a disorder that might result from distinct genetic influences. By carefully defining the target phenotype, or dividing the sample by phenotypic characteristics, we can hope to narrow the range of genes that influence risk for the trait in the study population, thereby increasing the likelihood of finding them. In this article, fundamental issues that arise in phenotyping in epilepsy and other disorders are reviewed, and factors complicating genotype-phenotype correlation are discussed. Methods of data collection, analysis, and interpretation are addressed, focusing on epidemiologic studies. With this foundation in place, the epilepsy subtypes and clinical features that appear to have a genetic basis are described, and the epidemiologic studies that have provided evidence for the heritability of these phenotypic characteristics, supporting their use in future genetic investigations, are reviewed. Finally, several molecular approaches to phenotype definition are discussed, in which the molecular defect, rather than the clinical phenotype, is used as a starting point.

  11. Auditory hedonic phenotypes in dementia: A behavioural and neuroanatomical analysis

    Science.gov (United States)

    Fletcher, Phillip D.; Downey, Laura E.; Golden, Hannah L.; Clark, Camilla N.; Slattery, Catherine F.; Paterson, Ross W.; Schott, Jonathan M.; Rohrer, Jonathan D.; Rossor, Martin N.; Warren, Jason D.

    2015-01-01

    Patients with dementia may exhibit abnormally altered liking for environmental sounds and music but such altered auditory hedonic responses have not been studied systematically. Here we addressed this issue in a cohort of 73 patients representing major canonical dementia syndromes (behavioural variant frontotemporal dementia (bvFTD), semantic dementia (SD), progressive nonfluent aphasia (PNFA) amnestic Alzheimer's disease (AD)) using a semi-structured caregiver behavioural questionnaire and voxel-based morphometry (VBM) of patients' brain MR images. Behavioural responses signalling abnormal aversion to environmental sounds, aversion to music or heightened pleasure in music (‘musicophilia’) occurred in around half of the cohort but showed clear syndromic and genetic segregation, occurring in most patients with bvFTD but infrequently in PNFA and more commonly in association with MAPT than C9orf72 mutations. Aversion to sounds was the exclusive auditory phenotype in AD whereas more complex phenotypes including musicophilia were common in bvFTD and SD. Auditory hedonic alterations correlated with grey matter loss in a common, distributed, right-lateralised network including antero-mesial temporal lobe, insula, anterior cingulate and nucleus accumbens. Our findings suggest that abnormalities of auditory hedonic processing are a significant issue in common dementias. Sounds may constitute a novel probe of brain mechanisms for emotional salience coding that are targeted by neurodegenerative disease. PMID:25929717

  12. Evaluation of different lignocellulosic biomass pretreatments by phenotypic microarray-based metabolic analysis of fermenting yeast

    Directory of Open Access Journals (Sweden)

    Stuart Wilkinson

    2016-03-01

    Full Text Available Advanced generation biofuel production from lignocellulosic material (LCM was investigated.  A range of different thermo-chemical pre-treatments were evaluated with different LCM. The pre-treatments included; alkaline (5% NaOH at 50°C, acid (1% H2SO4 at 121°C and autohydrolytical methods (200°C aqueous based hydrothermal and were evaluated using samples of miscanthus, wheat-straw and willow. The liberation of sugars, presence of inhibitory compounds, and the degree of enhancement of enzymatic saccharification was accessed. The suitability of the pre-treatment generated hydrolysates (as bioethanol feedstocks for Saccharomyces cerevisiae was also accessed using a phenotypic microarray that measured yeast metabolic output. The use of the alkaline pre-treatment liberated more glucose and arabinose into both the pre-treatment generated hydrolysate and also the hydrolysate produced after enzymatic hydrolysis (when compared with other pre-treatments. However, hydrolysates derived from use of alkaline pre-treatments were shown to be unsuitable as a fermentation medium due to issues with colloidal stability (high viscosity.  Use of acid or autohydrolytical pre-treatments liberated high concentrations of monosaccharides regardless of the LCM used and the hydrolysates had good fermentation performance with measurable yeast metabolic output. Acid pre-treated wheat straw hydrolysates were then used as a model system for larger scale fermentations to confirm both the results of the phenotypic microarray and its validity as an effective high-throughput screening tool.

  13. Comprehensive phenotypic analysis of rice (Oryza sativa) response to salinity stress

    KAUST Repository

    Pires, Inês S.

    2015-07-22

    Increase in soil salinity levels is becoming a major cause of crop yield losses worldwide. Rice (Oryza sativa) is the most salt-sensitive cereal crop, and many studies have focused on rice salinity tolerance, but a global understanding of this crop\\'s response to salinity is still lacking. We systematically analyzed phenotypic data previously collected for 56 rice genotypes to assess the extent to which rice uses three known salinity tolerance mechanisms: shoot-ion independent tolerance (or osmotic tolerance), ion exclusion, and tissue tolerance. In general, our analyses of different phenotypic traits agree with results of previous rice salinity tolerance studies. However, we also established that the three salinity tolerance mechanisms mentioned earlier appear among rice genotypes and that none of them is predominant. Against the pervasive view in the literature that the K+/Na+ ratio is the most important trait in salinity tolerance, we found that the K+ concentration was not significantly affected by salt stress in rice, which puts in question the importance of K+/Na+ when analyzing rice salt stress response. Not only do our results contribute to improve our global understanding of salt stress response in an important crop, but we also use our results together with an extensive literature research to highlight some issues commonly observed in salinity stress tolerance studies and to propose solutions for future experiments.

  14. Observed Score Equating Using a Mini-Version Anchor and an Anchor with Less Spread of Difficulty: A Comparison Study

    Science.gov (United States)

    Liu, Jinghua; Sinharay, Sandip; Holland, Paul; Feigenbaum, Miriam; Curley, Edward

    2011-01-01

    Two different types of anchors are investigated in this study: a mini-version anchor and an anchor that has a less spread of difficulty than the tests to be equated. The latter is referred to as a midi anchor. The impact of these two different types of anchors on observed score equating are evaluated and compared with respect to systematic error…

  15. 三峡永久船闸直立坡锁口锚杆应力监测分析%Analysis on monitoring results of locked anchor-bar stress at TGP permanent lock’s vertical slope

    Institute of Scientific and Technical Information of China (English)

    徐卫军; 李刚

    2001-01-01

    For understanding the stress state of locked anchor-bars at the top of TGP permanent lock’s vertical slope,and effectively evaluating their construction qualities and anchoring effects,several anchor stress meters were located at partial locked anchor-bars,and monitoring were practised. The monitoring results of stresses measured from anchor-bars showed that anchoring effects of anchor-bars are obvious,the deformation of permanent lock’s vertical slope basically tends towards stability.%为了解永久船闸直立坡顶锁口锚杆应力状态,有效地评价锚固施工质量及锚固效果,在部分锁口锚杆上布置了锚杆应力计,并进行了应力监测。监测成果表明,锚杆锚固效果明显,永久船闸二期开挖完毕后直立坡变形基本趋于稳定。

  16. Link Anchors in Images: Is there Truth?

    NARCIS (Netherlands)

    Aly, Robin; McGuinness, Kevin; Kleppe, Martijn; Ordelman, Roeland; O'Connor, Noel; Jong, de Franciska

    2012-01-01

    While automatic linking in text collections is well understood, little is known about links in images. In this work, we investigate two aspects of anchors, the origin of a link, in images: 1) the requirements of users for such anchors, e.g. the things users would like more information on, and 2) pos

  17. Method of fabrication of anchored nanostructure materials

    Science.gov (United States)

    Seals, Roland D; Menchhofer, Paul A; Howe, Jane Y; Wang, Wei

    2013-11-26

    Methods for fabricating anchored nanostructure materials are described. The methods include heating a nano-catalyst under a protective atmosphere to a temperature ranging from about 450.degree. C. to about 1500.degree. C. and contacting the heated nano-catalysts with an organic vapor to affix carbon nanostructures to the nano-catalysts and form the anchored nanostructure material.

  18. Anchors of Religious Commitment in Adolescents

    Science.gov (United States)

    Layton, Emily; Dollahite, David C.; Hardy, Sam A.

    2011-01-01

    This study explores adolescent religious commitment using qualitative data from a religiously diverse (Jewish, Christian, Muslim) sample of 80 adolescents. A new construct, "anchors of religious commitment," grounded in interview data, is proposed to describe what adolescents commit to as a part of their religious identity. Seven anchors of…

  19. Anchoring of proteins to lactic acid bacteria

    NARCIS (Netherlands)

    Leenhouts, K; Buist, Girbe; Kok, Jan

    1999-01-01

    The anchoring of proteins to the cell surface of lactic acid bacteria (LAB) using genetic techniques is an exciting and emerging research area that holds great promise for a wide variety of biotechnological applications. This paper reviews five different types of anchoring domains that have been exp

  20. Suction anchors for floating production systems

    Energy Technology Data Exchange (ETDEWEB)

    Tjelta, T.I.; Rusas, P. [Statoil a.s. (Norway); Edvardsen, G. [HEX a.s. (Norway)

    1996-12-31

    Since the suction anchor is a recent development in its current use, this work provides a brief historical background. It is shown that the suction anchor throughout evolution today is a competitive foundation solution for many applications. Examples from these categories are included in this paper. Also several installation methods are discussed. 3 refs., 7 figs., 2 tabs.

  1. 上部土钉墙-下部桩锚支护结构整体计算模型研究%Research on global analysis model of pit retaining structure with top soil nail and bottom pile anchor

    Institute of Scientific and Technical Information of China (English)

    庞宏飞; 和学庆; 宋建学

    2014-01-01

    A deep foundation excavation with top soil nail and bottom pile anchor retaining structure in the east of Zhengzhou is chosen as case study. The deformation analysis results of Overload Simplify Model and slope simplify model are compared with the experimental data and the results obtained from ABAQUS simulation a-nalysis. It is concluded that the deformation results derived from the Slope Simplify Model is too big when compared with the field survey results and the ABAQUS simulation results. The Overload Simplify Model is recommended in the retaining structure analysis.%以郑州市郑东新区上部土钉墙-下部桩锚支护结构为背景,采用放坡简化模型和超载简化模型,分别采用理正软件进行变形计算,将相应成果与实测数据和有限元数值分析成果比较,发现放坡模型对应的结构变形比超载模型大。采用超载模型计算简便,且可以保证工程安全。

  2. Ringstone anchors from Gujarat, west coast of India

    Digital Repository Service at National Institute of Oceanography (India)

    Gaur, A.S.; Sundaresh; Tripati, S.; Bandodkar, S.N.

    of Dwarka and Somanath have yielded several ringstone anchors along with other stone anchors such as triangular and grapnel types. The raw material used for these ring stones comprises basalt, sandstone and limestone. Earlier, these anchors were identified...

  3. Prevalence and genetic analysis of phenotypically Vi- negative Salmonella typhi isolates in children from Kathmandu, Nepal.

    Science.gov (United States)

    Pulickal, Anoop S; Callaghan, Martin J; Kelly, Dominic F; Maskey, Mitu; Mahat, Sandeep; Hamaluba, Mainga; Dongol, Sabina; Adhikari, Neelam; Thorson, Stephen; Basynat, Buddha; Murdoch, David R; Farrar, Jeremy J; Pollard, Andrew J

    2013-08-01

    The Vi capsular polysaccharide (ViPS) protects Salmonella enterica subspecies enterica serotype Typhi (S.Typhi) in vivo by multiple mechanisms. Recent microbiological reports from typhoid endemic countries suggest that acapsulate S.Typhi may occur in nature and contribute to clinical typhoid fever that is indistinguishable from disease caused by capsulate strains. The prevalence and genetic basis of ViPS-negative S.Typhi isolates in children from Kathmandu, Nepal, were tested in 68 isolates. Although 5.9% of isolates tested negative for capsular expression by slide agglutination tests, a novel multiplex PCR assay and individual PCR analyses demonstrated the presence of all 14 genes responsible for the synthesis, transportation and regulation of the ViPS. These data suggest that phenotypically acapsulate S.Typhi may not have a genetic basis for the same.

  4. Whole exome analysis identifies dominant COL4A1 mutations in patients with complex ocular phenotypes involving microphthalmia.

    Science.gov (United States)

    Deml, B; Reis, L M; Maheshwari, M; Griffis, C; Bick, D; Semina, E V

    2014-11-01

    Anophthalmia/microphthalmia (A/M) is a developmental ocular malformation defined as complete absence or reduction in size of the eye. A/M is a heterogenous disorder with numerous causative genes identified; however, about half the cases lack a molecular diagnosis. We undertook whole exome sequencing in an A/M family with two affected siblings, two unaffected siblings, and unaffected parents; the ocular phenotype was isolated with only mild developmental delay/learning difficulties reported and a normal brain magnetic resonance imaging (MRI) in the proband at 16 months. No pathogenic mutations were identified in 71 known A/M genes. Further analysis identified a shared heterozygous mutation in COL4A1, c.2317G>A, p.(Gly773Arg) that was not seen in the unaffected parents and siblings. Analysis of 24 unrelated A/M exomes identified a novel c.2122G>A, p.(Gly708Arg) mutation in an additional patient with unilateral microphthalmia, bilateral microcornea and Peters anomaly; the mutation was absent in the unaffected mother and the unaffected father was not available. Mutations in COL4A1 have been linked to a spectrum of human disorders; the most consistent feature is cerebrovascular disease with variable ocular anomalies, kidney and muscle defects. This study expands the spectrum of COL4A1 phenotypes and indicates screening in patients with A/M regardless of MRI findings or presumed inheritance pattern.

  5. 桩锚式边坡联合加固技术稳定性分析%On analysis of stability of combined reinforcement technique at pile-anchor side slopes

    Institute of Scientific and Technical Information of China (English)

    谷秀娟

    2012-01-01

    According to the defects in the traditional soil high side slope reinforcement technique,the study introduces the features of the combined reinforcement technique at pile-anchor side slopes,undertakes the evaluation analysis of its reinforcement effect according to the stability analysis and the application of the engineering practice,and points out the reinforcement technique is reasonable and feasible,so it has better reinforcement effect on high soil side slopes.%针对传统土质高边坡加固技术的缺点,介绍了桩锚式边坡联合加固技术的特点,通过稳定性分析和工程实践应用,并对其加固效果进行了评价分析,指出该加固技术合理可行,对土质高边坡具有良好的加固效果。

  6. 微膨胀锚固剂膨胀应力分析及性能试验研究%Analysis of Expansion Stress and Experiment Research on Performance of Micro -expansion Anchoring Agent

    Institute of Scientific and Technical Information of China (English)

    陈威

    2014-01-01

    基于弹性力学厚壁筒理论,建立了膨胀应力分析模型,分析了膨胀压力与拉伸应力的转换机理,推导得出无限大区域膨胀拉伸应力计算公式,指出无限大区域内岩体径向压应力σρ和环向拉伸应力σφ大小相等,均与岩体所处位置至钻孔中心的距离ρ成反比,与钻孔半径r和孔壁内压力P内成正比,在此基础上研究了岩体产生拉伸破坏的条件,结合岩石极限抗拉强度和微膨胀树脂锚固剂的最大膨胀拉伸应力,给出了U EA膨胀材料的配比范围,并通过单轴抗压试验证明了U EA膨胀剂对树脂锚固剂力学性能基本没有影响,可以满足使用要求。%Expansion stress analysis mode has been established based on the thick -walled tube theory of elastic-ity ,the calculation formula of infinite media expansion tension stress has been deducted after the analysis of con-version mechanism between expansion stress and tension stress .The formula showed that rock mass radial com-pressive stress (бρ)and circumferential tension stress (бφ) were equal within infinite media ,both of them were inverse proportional to the distance(ρ)of rock location between drilling center ,and directly proportional to drill-ing radius (r)and the pressure inside hole wall(p) .The paper has studied the condition of rock mass producing tensile failure ,given the ratio range of UEA expansion material combined with rock ultimate tensile strength and the largest expansion tensile stress of micro -expansion resin anchoring agent ,and proved that UEA expansion agent had little influence on mechanical properties of resin anchoring cartridge by uniaxial compressive test , which can meet the requirements .

  7. Comprehensive analysis of gene mutation and phenotype of tuberous sclerosis complex in China

    Directory of Open Access Journals (Sweden)

    Guo-qiang HUANG

    2015-04-01

    Full Text Available Objective To summarize the clinical features of tuberous sclerosis complex (TSC, the distribution and description of TSC gene, and to probe into the correlation of genotype with phenotype.  Methods According to the 1998 International Tuberous Sclerosis Complex Diagnostic Criteria, a total of 163 TSC patients with pathogenic mutation in TSC gene (3 cases were detected in our hospital, and the other 160 cases were collected from other institutions in China were enrolled, and their gene detection results and clinical data were analyzed.  Results Among 163 cases, TSC1 mutation (31 cases accounted for 19.02% [32.26% (10/31 in exon 15, 16.13% (5/31 in exon 21, 12.90% (4/31 in exon 18], and TSC2 mutation (132 cases accounted for 80.98% [9.85% (13/132 in exon 37, 7.58% (10/132 in exon 40, 6.82%(9/132 in exon 33]. The proportion of base replacement in TSC1 was 41.94% (13/31, and 52.27% (69/132 in TSC2. Male patients exhibited significantly more subependymal nodules or calcifications than thefemale patients (χ2 = 8.016, P = 0.005. Sporadic patients exhibited significantly more cortical tubers than familial patients (χ2 = 6.273, P = 0.012. Patients with TSC2 mutations had significantly higher frequencies of hypomelanotic macules than patients with TSC1 mutations (χ2 = 6.756, P = 0.009. Patients with missense mutations were more likely to have facial angiofibromas compared with patients with other mutations (χ2 = 4.438, P = 0.035.  Conclusions Exon 15, 21 and 18 of TSC1 and exon 37, 40 and 33 of TSC2 accounted for higher percentage of mutations. Correlating genotypes with phenotypes should facilitate the individualized treatment and prognostic assessment of tuberous sclerosis complex. DOI: 10.3969/j.issn.1672-6731.2015.04.013

  8. New Insights into Genotype-phenotype Correlations in Chinese Facioscapulohumeral Muscular Dystrophy: A Retrospective Analysis of 178 Patients

    Directory of Open Access Journals (Sweden)

    Feng Lin

    2015-01-01

    Conclusions: Although the number of D4Z4 repeats is known as one of the critical influences on genotype-phenotype correlation, a majority of phenotypic spectrum was still incompatible with their heterozygous contraction of the D4Z4 repeat, especial in female cases. Our results suggest that there are multi-factors synergistically modulating the phenotypic expression.

  9. Azimuthal anchoring of a nematic liquid crystal on a grooved interface with anisotropic polar anchoring

    Institute of Scientific and Technical Information of China (English)

    Zhou Xuan; Zhang Zhi-Dong; Ye Wen-Jiang; Xuan Li

    2012-01-01

    Zhang Y Jet al.[Zhang Y J,Zhang Z D,Zhu L Z and Xuan L 2011 Liquid Cryst.38 355] investigated the effects of finite polar anchoring on the azimuthal anchoring energy at a grooved interface,in which polar anchoring was isotropic in the local tangent plane of the surface.In this paper,we investigate the effects of both isotropic and anisotropic polar anchoring on the surface anchoring energy in the frame of Fukuda et al.'s theory.The results show that anisotropic polar anchoring strengthens the azimuthal anchoring of grooved surfaces.In the one-elastic-constant approximation (K11 =K22 =K33 =K),the surface-groove-induced azimuthal anchoring energy is entirely consistent with the result of Faetti,and it reduces to the original result of Berreman with an increase in polar anchoring.Moreover,the contribution of the surface-like elastic term to the Rapini-Papoular anchoring energy is zero.

  10. Analysis of phenotype, enzyme activity and genotype of Chinese patients with POMT1 mutation.

    Science.gov (United States)

    Yang, Haipo; Manya, Hiroshi; Kobayashi, Kazuhiro; Jiao, Hui; Fu, Xiaona; Xiao, Jiangxi; Li, Xiaoqing; Wang, Jingmin; Jiang, Yuwu; Toda, Tatsushi; Endo, Tamao; Wu, Xiru; Xiong, Hui

    2016-08-01

    Protein O-mannosyltransferase 1 (POMT1) is a glycosyltransferase involved in α-dystroglycan glycosylation. POMT1 mutations cause a wide spectrum of clinical conditions from Walker-Warburg syndrome (WWS), which involves muscle, eye and brain abnormalities, to mild forms of limb-girdle muscular dystrophy with mental retardation. We aimed to elucidate the impact of different POMT1 mutations on the clinical phenotype. We report five Chinese patients with POMT1 mutations: one had a typical clinical manifestation of WWS, and the other four were diagnosed with congenital muscular dystrophy with mental retardation of varying severity. We analyzed the influence of the POMT1 mutations on POMT activity by assaying the patients' muscles and cultured skin fibroblasts. We demonstrated different levels of decreased POMT activity that correlated highly with decreased α-dystroglycan glycosylation. Our results suggest that POMT activity is inversely proportional to clinical severity, and demonstrate that skin fibroblasts can be used for differential diagnosis of patients with α-dystroglycanopathies. We have provided clinical, histological, enzymatic and genetic evidence of POMT1 involvement in five unrelated Chinese patients.

  11. Analysis of image-based phenotypic parameters for high throughput gene perturbation assays.

    Science.gov (United States)

    Song, Mee; Jeong, Euna; Lee, Tae-Kyu; Tsoy, Yury; Kwon, Yong-Jun; Yoon, Sukjoon

    2015-10-01

    Although image-based phenotypic assays are considered a powerful tool for siRNA library screening, the reproducibility and biological implications of various image-based assays are not well-characterized in a systematic manner. Here, we compared the resolution of high throughput assays of image-based cell count and typical cell viability measures for cancer samples. It was found that the optimal plating density of cells was important to obtain maximal resolution in both types of assays. In general, cell counting provided better resolution than the cell viability measure in diverse batches of siRNAs. In addition to cell count, diverse image-based measures were simultaneously collected from a single screening and showed good reproducibility in repetitions. They were classified into a few functional categories according to biological process, based on the differential patterns of hit (i.e., siRNAs) prioritization from the same screening data. The presented systematic analyses of image-based parameters provide new insight to a multitude of applications and better biological interpretation of high content cell-based assays. PMID:26256799

  12. Phenotypical and Functional Analysis of Intraepithelial Lymphocytes from Small Intestine of Mice in Oral Tolerance

    Directory of Open Access Journals (Sweden)

    Maristela Ruberti

    2012-01-01

    Full Text Available In this work, we evaluated the effects of administration of OVA on phenotype and function of intraepithelial lymphocytes (IELs from small intestine of transgenic (TGN DO11.10 and wild-type BALB/c mice. While the small intestines from BALB/c presented a well preserved structure, those from TGN showed an inflamed aspect. The ingestion of OVA induced a reduction in the number of IELs in small intestines of TGN, but it did not change the frequencies of CD8+ and CD4+ T-cell subsets. Administration of OVA via oral + ip increased the frequency of CD103+ cells in CD4+ T-cell subset in IELs of both BALB/c and TGN mice and elevated its expression in CD8β+ T-cell subset in IELs of TGN. The frequency of Foxp3+ cells increased in all subsets in IELs of BALB/c treated with OVA; in IELs of TGN, it increased only in CD25+ subset. IELs from BALB/c tolerant mice had lower expression of all cytokines studied, whereas those from TGN showed high expression of inflammatory cytokines, especially of IFN-γ, TGF-β, and TNF-α. Overall, our results suggest that the inability of TGN to become tolerant may be related to disorganization and altered proportions of inflammatory/regulatory T cells in its intestinal mucosa.

  13. Anchored nanostructure materials and method of fabrication

    Science.gov (United States)

    Seals, Roland D; Menchhofer, Paul A; Howe, Jane Y; Wang, Wei

    2012-11-27

    Anchored nanostructure materials and methods for their fabrication are described. The anchored nanostructure materials may utilize nano-catalysts that include powder-based or solid-based support materials. The support material may comprise metal, such as NiAl, ceramic, a cermet, or silicon or other metalloid. Typically, nanoparticles are disposed adjacent a surface of the support material. Nanostructures may be formed as anchored to nanoparticles that are adjacent the surface of the support material by heating the nano-catalysts and then exposing the nano-catalysts to an organic vapor. The nanostructures are typically single wall or multi-wall carbon nanotubes.

  14. Anchor-linked intermediates in peptide amide synthesis are caused by dimeric anchors on the solid supports.

    Science.gov (United States)

    Flechsler, I; Beck-Sickinger, A G; Stephan, H; Sheppard, R; Jung, G

    1995-01-01

    Cleavage and kinetic studies have been carried out using commercially obtained H-Tyr(tBu)-5-(4'-aminomethyl-3',5'-dimethoxyphenoxy)valeric acid-TentaGelS (H-Tyr(tBu)-4-ADPV-TentaGelS) and H-Tyr (tBu)-4-ADPV-Ala-aminomethyl-resin (H-Tyr(tBu)-4-ADPV-AM-resin) prepared from commercially available resin and loaded with commercially available Fmoc-4-ADPV-OH amide anchor. Cleavage with pure trifluoroacetic acid (TFA) gave the intermediate H-Tyr-4-ADPV-NH2, which was then degraded to H-Tyr-NH2, and cleavage with TFA/dichloromethane (1:9) yielded H-Tyr-4-ADPV-NH2 which could be isolated in preparative amounts. Cleavage reactions with 15N-labelled H-Ala-4-ADPV-(15N)-Gly-AM-resin yielded the intermediate H-Ala-4-ADPV-NH2, which contained no 15N as demonstrated by 1H-NMR. The analysis of the commercial Fmoc-4-ADPV-OH amide anchor showed the presence of Fmoc-4-ADPV-4-ADPV-OH as an impurity in high amounts. This dimeric anchor molecule is the cause of formation of the anchor-linked peptide intermediate obtained during the cleavage from the resin. The particularly high acid-lability of the amide bond between the two ADPV moieties was utilized to synthesize sidechain and C-terminally 4-ADPV protected pentagastrin on a double-anchor resin, and to cleave it using 5% trifluoroacetic acid in dichloromethane. This method may offer a new way for the synthesis of protected peptide amides with improved solubility to be used in fragment condensation.

  15. Meta-analysis of melanin-concentrating hormone signaling-deficient mice on behavioral and metabolic phenotypes.

    Directory of Open Access Journals (Sweden)

    Kenkichi Takase

    Full Text Available The demand for meta-analyses in basic biomedical research has been increasing because the phenotyping of genetically modified mice does not always produce consistent results. Melanin-concentrating hormone (MCH has been reported to be involved in a variety of behaviors that include feeding, body-weight regulation, anxiety, sleep, and reward behavior. However, the reported behavioral and metabolic characteristics of MCH signaling-deficient mice, such as MCH-deficient mice and MCH receptor 1 (MCHR1-deficient mice, are not consistent with each other. In the present study, we performed a meta-analysis of the published data related to MCH-deficient and MCHR1-deficient mice to obtain robust conclusions about the role of MCH signaling. Overall, the meta-analysis revealed that the deletion of MCH signaling enhanced wakefulness, locomotor activity, aggression, and male sexual behavior and that MCH signaling deficiency suppressed non-REM sleep, anxiety, responses to novelty, startle responses, and conditioned place preferences. In contrast to the acute orexigenic effect of MCH, MCH signaling deficiency significantly increased food intake. Overall, the meta-analysis also revealed that the deletion of MCH signaling suppressed the body weight, fat mass, and plasma leptin, while MCH signaling deficiency increased the body temperature, oxygen consumption, heart rate, and mean arterial pressure. The lean phenotype of the MCH signaling-deficient mice was also confirmed in separate meta-analyses that were specific to sex and background strain (i.e., C57BL/6 and 129Sv. MCH signaling deficiency caused a weak anxiolytic effect as assessed with the elevated plus maze and the open field test but also caused a weak anxiogenic effect as assessed with the emergence test. MCH signaling-deficient mice also exhibited increased plasma corticosterone under non-stressed conditions, which suggests enhanced activity of the hypothalamic-pituitary-adrenal axis. To the best of our

  16. Design and Analysis of Main Saddle Structure for Self-anchored Suspension Bridge with Spatial Cables%空间缆索悬索桥主鞍座结构设计与分析

    Institute of Scientific and Technical Information of China (English)

    李建慧; 李爱群; 袁辉辉; 李喜平

    2009-01-01

    以南京江心洲大桥为工程背景,对空间缆索自锚式悬索桥主鞍座的相关问题进行研究.以大型通用有限元程序为平台,采用二次开发技术,建立精细化有限元模型,在此基础上采用合理的加载模式对其进行空间受力分析,并阐述与空间主鞍座相匹配的主缆切点简化修正方法.结果表明:空间主缆在成桥状态对主鞍座横向力的作用会造成鞍槽外侧壁应力大于内侧壁的应力;主缆横向体积力会对主鞍座压紧装置和鞍体产生梯度分布的竖向挤压力;自锚式悬索桥体系转换过程中缆索的几何非线性效应显著,体现在空缆到成桥状态主缆与主鞍座空间切点位置会有较大的变化.%Based on the Jianxinzhou Bridge in Nanjing, the issues related to the main saddle of the serf-anchored suspension bridge with spatial cables were studied. Refinement finite element model was established with secondary development technology based on the platform of general finite element program, reasonable load pattern was used for its spatial mechanical analysis, and the spatial main cable tangenty point correction method which matched with the main saddle was also discussed. The result shows that (1) external lateral wall stress of saddle groove is higher than the internal wall stress because of the role of lateral force from the main cable in the ~mished bridge state; (2) horizontal volume force of the main cable can generate a gradient distribution of vertical extrusion pressure on the saddle clamping device and the main saddle body; (3) the geometric nonlinear effect of self-anchored suspension bridge cable system in the constroction process is significant, which reflects from that the spatial tangent point position of main cable with main saddle changes a lot from free cable to finished cable state.

  17. 基于框架预应力锚杆加固技术的重力式挡土墙的稳定性分析%Stability analysis of gravity retaining wall reinforced with framed prestressed anchors

    Institute of Scientific and Technical Information of China (English)

    朱彦鹏; 王勇; 周勇

    2012-01-01

    Based on the instability phenomenon of gravity retaining wall, the framed anchor with prestress was used to reinforce the retaining wall. On the basis of limit equilibrium theory and Coulomb earth pressure theory, the stability of retaining walls was analyzed and the solution formula of safety coefficient of stability of anti-slip and anti-overturning was derived. It was shown by illustrative computation and cont-rastive analysis, the result showed that the safety coefficient of stability of the gravity retaining wall with this kind of reinforcement techniques was significantly improved. The safety coefficient of stability would be increased by about 50% when the prestress was increased by 50 kN. However, taking the economic and security aspects into account, 100 kN prestress applied to the anchors would be the most optimaL%基于重力式挡土墙不稳定的现象,运用框架预应力锚杆加固技术对重力式挡土墙进行加固.以极限平衡理论及库仑土压力理论为基础,对挡土墙进行稳定性分析,推导出挡土墙的抗滑移稳定性和抗倾覆稳定性安全系数的求解计算公式.通过算例计算及对比分析,结果显示引入此加固技术的重力式挡墙的稳定性安全系数明显提高,在锚杆预应力每增加50 kN时,稳定性安全系数提高的幅度达到50%左右;从经济性和安全性两方面综合考虑,对锚杆施加100kN的预应力是最佳的.

  18. 基于可靠度分析的锚杆抗拔安全系数取值标准研究%Criteria for determining factor of safety of anchor against pull-out by using reliability analysis

    Institute of Scientific and Technical Information of China (English)

    王玉杰; 徐佳成; 汪小刚; 曾庆义

    2012-01-01

    现行规范中关于锚杆抗拔安全设计标准,通常是从锚杆杆体的抗拉强度、注浆体与杆体的黏结强度以及注浆体与周围岩土体的黏结强度这3方面来定义抗拔安全系数,并建议采用统一的取值标准。实际上由于力学机理、材料性质等方面的不同,这3种定义下的安全系数取值标准应有所不同。基于这一背景,应用可靠度分析理论,探讨锚杆抗拔在同一可靠度(失效概率)条件下,这3种定义的安全系数的差别,并为相关规程的修订工作中的锚杆抗拔安全系数取值标准的确定提供科学依据。%In the existing specifications and codes, the factor of safety of anchor against pull-out is generally defined by considering tensile strength of steel bar/strand, bond strength of grout and the steel bar/strand, and bond strength of grout and surrounding rock/soil. It results in three different types of factors of safety, which are being applied in practice. The current China's specifications and codes suggest the same allowable value for the above three different types of factors of safety. Actually, there is quite difference among them due to different pull-out failure mechanisms of tendon. In view of this limitation, the difference among them is studied and discussed under the same reliability (or failure probability) by using the reliability analysis, and the criteria for determining the factor of safety of anchor against pull-out are proposed.

  19. 预应力锚索加固边坡的数值模拟分析%Numerical Simulation Analysis of pre-stressed Anchor Cable in Slope Reinforcement

    Institute of Scientific and Technical Information of China (English)

    关志鹏; 雷用; 胡明

    2015-01-01

    Combined with practical projects, and with the FEM software ANSYS, the whole bond tensioned grout anchor, the not whole bond tensioned grout anchor and pressured grout anchor reinforcing slope are analyzed by numerical calculation. Based on strength reduction method principle, the stabil-ity factor before and after slope reinforcement is calculated and the stability of pre-stressed anchor reinforced slope is evaluated. The results show that the maximum deformation, maximum vertical displacement, maximum plasticity equivalent strain and maximum equivalent stress are tiny and the plasticity zone is small after pre-stressed anchor reinforced slope. The stability factor calculated by numerical calculation meets the demand and achieves the aim of reinforcement. The maximum equivalent stress of pressured grout anchor is less than that of tensioned grout anchor and there is stress concentration with tensioned grout anchor at slide area, so the pressured grout anchor reinforcing slope is superior to that of tensioned grout anchor.%结合工程实例,采用有限元软件ANSYS,对全粘结拉力型、自由段非粘结拉力型和压力型预应力锚索加固边坡进行数值计算,并基于强度折减法原理,计算了边坡加固前后的稳定安全系数,对预应力锚索加固边坡的稳定性进行评价。结果表明,预应力锚索加固边坡后,边坡的最大变形、最大竖向位移、最大塑性等效应变和最大等效应力均较小,边坡塑性区很小,并且有限元计算得到的稳定安全系数满足要求,达到了加固边坡的效果;压力型预应力锚索最大等效应力小于拉力型预应力锚索,且全粘结拉力型预应力锚索在滑带处产生应力集中,因此压力型预应力锚索具有一定的优越性。

  20. Ocular Phenotype Analysis of a Family With Biallelic Mutations in the BEST1 Gene

    DEFF Research Database (Denmark)

    Sharon, Dror; Al-Hamdani, Sermed; Engelsberg, Karl;

    2014-01-01

    PURPOSE: To investigate the genetic cause and perform a comprehensive clinical analysis of a Danish family with autosomal recessive bestrophinopathy; to investigate whether Bestrophin may be expressed in normal human retina. DESIGN: Retrospective clinical and molecular genetic analysis and immuno...... function, autosomal recessive bestrophinopathy may be a suitable first candidate, among the BEST1-related ocular conditions, for gene replacement therapy....

  1. Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium

    Science.gov (United States)

    Finak, Greg; Langweiler, Marc; Jaimes, Maria; Malek, Mehrnoush; Taghiyar, Jafar; Korin, Yael; Raddassi, Khadir; Devine, Lesley; Obermoser, Gerlinde; Pekalski, Marcin L.; Pontikos, Nikolas; Diaz, Alain; Heck, Susanne; Villanova, Federica; Terrazzini, Nadia; Kern, Florian; Qian, Yu; Stanton, Rick; Wang, Kui; Brandes, Aaron; Ramey, John; Aghaeepour, Nima; Mosmann, Tim; Scheuermann, Richard H.; Reed, Elaine; Palucka, Karolina; Pascual, Virginia; Blomberg, Bonnie B.; Nestle, Frank; Nussenblatt, Robert B.; Brinkman, Ryan Remy; Gottardo, Raphael; Maecker, Holden; McCoy, J Philip

    2016-01-01

    Standardization of immunophenotyping requires careful attention to reagents, sample handling, instrument setup, and data analysis, and is essential for successful cross-study and cross-center comparison of data. Experts developed five standardized, eight-color panels for identification of major immune cell subsets in peripheral blood. These were produced as pre-configured, lyophilized, reagents in 96-well plates. We present the results of a coordinated analysis of samples across nine laboratories using these panels with standardized operating procedures (SOPs). Manual gating was performed by each site and by a central site. Automated gating algorithms were developed and tested by the FlowCAP consortium. Centralized manual gating can reduce cross-center variability, and we sought to determine whether automated methods could streamline and standardize the analysis. Within-site variability was low in all experiments, but cross-site variability was lower when central analysis was performed in comparison with site-specific analysis. It was also lower for clearly defined cell subsets than those based on dim markers and for rare populations. Automated gating was able to match the performance of central manual analysis for all tested panels, exhibiting little to no bias and comparable variability. Standardized staining, data collection, and automated gating can increase power, reduce variability, and streamline analysis for immunophenotyping. PMID:26861911

  2. Anchoring Adjusted Capital Asset Pricing Model

    OpenAIRE

    Hammad, Siddiqi

    2015-01-01

    An anchoring adjusted Capital Asset Pricing Model (ACAPM) is developed in which the payoff volatilities of well-established stocks are used as starting points that are adjusted to form volatility judgments about other stocks. Anchoring heuristic implies that such adjustments are typically insufficient. ACAPM converges to CAPM with correct adjustment, so CAPM is a special case of ACAPM. The model provides a unified explanation for the size, value, and momentum effects in the stock market. A ke...

  3. FRP-to-concrete joint assemblies anchored with multiple FRP anchors: experimental investigation

    OpenAIRE

    Zhang, H.; Smith, ST

    2010-01-01

    Higher strains can be developed in fibre-reinforced polymer (FRP) composites which are bonded to the surfaces of concrete members if the FRP is anchored. Anchors made from FRP (also known as FRP spike anchors but herein referred to as FRP anchors) are a promising type of anchorage as they can be applied to a variety of different shaped structural elements and they have been shown to be effective in en-hancing the strain capacity of externally bonded FRP. Limited research, however, has been co...

  4. Phylogenetic analysis of phenotypically characterized Cryptococcus laurentii isolates reveals high frequency of cryptic species.

    Directory of Open Access Journals (Sweden)

    Kennio Ferreira-Paim

    Full Text Available Although Cryptococcus laurentii has been considered saprophytic and its taxonomy is still being described, several cases of human infections have already reported. This study aimed to evaluate molecular aspects of C. laurentii isolates from Brazil, Botswana, Canada, and the United States.In this study, 100 phenotypically identified C. laurentii isolates were evaluated by sequencing the 18S nuclear ribosomal small subunit rRNA gene (18S-SSU, D1/D2 region of 28S nuclear ribosomal large subunit rRNA gene (28S-LSU, and the internal transcribed spacer (ITS of the ribosomal region.BLAST searches using 550-bp, 650-bp, and 550-bp sequenced amplicons obtained from the 18S-SSU, 28S-LSU, and the ITS region led to the identification of 75 C. laurentii strains that shared 99-100% identity with C. laurentii CBS 139. A total of nine isolates shared 99% identity with both Bullera sp. VY-68 and C. laurentii RY1. One isolate shared 99% identity with Cryptococcus rajasthanensis CBS 10406, and eight isolates shared 100% identity with Cryptococcus sp. APSS 862 according to the 28S-LSU and ITS regions and designated as Cryptococcus aspenensis sp. nov. (CBS 13867. While 16 isolates shared 99% identity with Cryptococcus flavescens CBS 942 according to the 18S-SSU sequence, only six were confirmed using the 28S-LSU and ITS region sequences. The remaining 10 shared 99% identity with Cryptococcus terrestris CBS 10810, which was recently described in Brazil. Through concatenated sequence analyses, seven sequence types in C. laurentii, three in C. flavescens, one in C. terrestris, and one in the C. aspenensis sp. nov. were identified.Sequencing permitted the characterization of 75% of the environmental C. laurentii isolates from different geographical areas and the identification of seven haplotypes of this species. Among sequenced regions, the increased variability of the ITS region in comparison to the 18S-SSU and 28S-LSU regions reinforces its applicability as a DNA

  5. Flapping states of an el astically anchored wing in a uniform flow

    OpenAIRE

    Orchini, A.; Mazzino, A; Guerrero, J.; Festa, R.; Boragno, C.

    2012-01-01

    Linear stability analysis of an elastically anchored wing in a uniform flow is investigated both analytically and numerically. The analytical formulation explicitly takes into account the effect of the wake on the wing by means of Theodorsen's theory. Three different parameters non-trivially rule the observed dynamics: mass density ratio between wing and fluid, spring elastic constant and distance between the wing center of mass and the spring anchor point on the wing. We found relationships ...

  6. Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium

    OpenAIRE

    Greg Finak; Marc Langweiler; Maria Jaimes; Mehrnoush Malek; Jafar Taghiyar; Yael Korin; Khadir Raddassi; Lesley Devine; Gerlinde Obermoser; Pekalski, Marcin L.; Nikolas Pontikos; Alain Diaz; Susanne Heck; Federica Villanova; Nadia Terrazzini

    2016-01-01

    Standardization of immunophenotyping requires careful attention to reagents, sample handling, instrument setup, and data analysis, and is essential for successful cross-study and cross-center comparison of data. Experts developed five standardized, eight-color panels for identification of major immune cell subsets in peripheral blood. These were produced as pre-configured, lyophilized, reagents in 96-well plates. We present the results of a coordinated analysis of samples across nine laborato...

  7. Improving performance by anchoring movement and "nerves".

    Science.gov (United States)

    Iso-Ahola, Seppo E; Dotson, Charles O; Jagodinsky, Adam E; Clark, Lily C; Smallwood, Lorraine L; Wilburn, Christopher; Weimar, Wendi H; Miller, Matthew W

    2016-10-01

    Golf's governing bodies' recent decision to ban all putting styles "anchoring one end of the club against the body" bridges an important practical problem with psychological theory. We report the first experiment testing whether anchoring provides technical and/or psychological advantage in competitive performance. Many "greats" of professional golf from Arnold Palmer and Jack Nicklaus to Tiger Woods have argued against anchoring, believing that it takes "nerves" out of competitive performance and therefore artificially levels the playing field. To shed more light on the issue, we tested participants' performance with anchored and unanchored putters under low and high pressure when controlling for the putter length. We found no statistically significant evidence for a technical advantage due to anchoring but a clear psychological advantage: participants who anchored their putters significantly outperformed unanchored counterparts under high, but not low, pressure. Results provide tentative evidence for the ban's justification from a competitive standpoint. However, before any definite conclusions can be made, more research is needed when using high-level golfers. PMID:27459587

  8. The Use of Comics-Based Cases in Anchored Instruction

    Science.gov (United States)

    Kneller, Matthew F.

    2009-01-01

    The primary purpose of this research was to understand how comics fulfill the role of anchor in an anchored instruction learning environment. Anchored instruction addresses the inert knowledge problem through the use of realistic multimedia stories, or "anchors," that embed a problem and the necessary data to solve it within the narrative. In the…

  9. Analysis on the Application of Prestressed Anchor Technology in Highway High Slope Construction%浅析预应力锚索技术在公路高边坡施工中的应用

    Institute of Scientific and Technical Information of China (English)

    吴广

    2015-01-01

    预应力锚索技术作为公路高边坡工程中一项新型锚固技术,达到提升土体锚固的强度,增强边坡岩体稳定性的作用。随着我国公路工程的快速发展,预应力锚索施工技术越来越完善,应用的范围也越来越广,本论文对预应力锚索施工工艺进行了介绍,希望对公路高边坡的加固提高技术帮助。%As a new anchor technology in highway high slope engineering, prestressed anchor technology can improve the strength of the soil anchor and enhance the slope rock mass stability. With the rapid development of highway engineering in China, the prestressed anchor rope construction technology is improving greatly, and is more and more widely used. The prestressed anchor rope construction technology is introduced in this paper, and it hopes to provide technical help for highway high slope reinforcement.

  10. Comparative analysis of features phenotype limb-girdle muscular dystrophy 2А and 2I types

    Directory of Open Access Journals (Sweden)

    I. V. Sharkova

    2013-01-01

    Full Text Available A comparative analysis of the frequency of occurrence of 36 clinical symptoms in the three groups of patients with LGMD 2A and LGMD 2Itypes and LGMD those patients who have mutations in CAPN3 and FKRP was detected. The absence of a particular symptom, allowing for thedifferentiation of these genetic variants on clinical level. An algorithm for molecular genetic investigation of patients according to age at onset and some clinical symptoms. The proposed algorithm can significantly reduce the economic and time costs during expensive standing DNA analysis.

  11. Comparative analysis of phenotypes features in two common genetic variants of limb-girdle muscular dystrophy

    Directory of Open Access Journals (Sweden)

    I. V. Sharkova

    2015-01-01

    Full Text Available The algorithm of differential diagnosis of the two most common genetic variants the limb-girdle muscular dystrophy (LGMD2A and DMD, developed on the basis of a comprehensive survey of 85 patients with a diagnosis specification using techniques of DNA analysis. It is shown that the accurate diagnosis of LGMD genetic types should be based on the results of the clinical and genealogical, biochemical and molecular genetic analysis. The proposed algorithm will significantly reduces the economic and time costs with expensive DNA testing.

  12. Comparative analysis of phenotypes features in two common genetic variants of limb-girdle muscular dystrophy

    OpenAIRE

    I. V. Sharkova; E. L. Dadali; I. V. Ugarov; O. P. Ryzhkova; A. V. Polyakov

    2015-01-01

    The algorithm of differential diagnosis of the two most common genetic variants the limb-girdle muscular dystrophy (LGMD2A and DMD), developed on the basis of a comprehensive survey of 85 patients with a diagnosis specification using techniques of DNA analysis. It is shown that the accurate diagnosis of LGMD genetic types should be based on the results of the clinical and genealogical, biochemical and molecular genetic analysis. The proposed algorithm will significantly reduces the economic a...

  13. Isolation of murine hepatic lymphocytes using mechanical dissection for phenotypic and functional analysis of NK1.1 + cells

    Institute of Scientific and Technical Information of China (English)

    Zhong-Jun Dong; Hai-Ming Wei; Rui Sun; Bin Gao; Zhi-Gang Tian

    2004-01-01

    .CONCLUSION: There is no difference in the cell yield and viability of the hepatic lymphocyte isolated with the two methods. The mechanical dissection, but not the enzymatic digestion, may be suitable for the phenotypic analysis of hepatic NK1.1+ cell.

  14. A Phylogenetic and Phenotypic Analysis of Salmonella enterica Serovar Weltevreden, an Emerging Agent of Diarrheal Disease in Tropical Regions.

    Directory of Open Access Journals (Sweden)

    Carine Makendi

    2016-02-01

    Full Text Available Salmonella enterica serovar Weltevreden (S. Weltevreden is an emerging cause of diarrheal and invasive disease in humans residing in tropical regions. Despite the regional and international emergence of this Salmonella serovar, relatively little is known about its genetic diversity, genomics or virulence potential in model systems. Here we used whole genome sequencing and bioinformatics analyses to define the phylogenetic structure of a diverse global selection of S. Weltevreden. Phylogenetic analysis of more than 100 isolates demonstrated that the population of S. Weltevreden can be segregated into two main phylogenetic clusters, one associated predominantly with continental Southeast Asia and the other more internationally dispersed. Subcluster analysis suggested the local evolution of S. Weltevreden within specific geographical regions. Four of the isolates were sequenced using long read sequencing to produce high quality reference genomes. Phenotypic analysis in Hep-2 cells and in a murine infection model indicated that S. Weltevreden were significantly attenuated in these models compared to the classical S. Typhimurium reference strain SL1344. Our work outlines novel insights into this important emerging pathogen and provides a baseline understanding for future research studies.

  15. A Phylogenetic and Phenotypic Analysis of Salmonella enterica Serovar Weltevreden, an Emerging Agent of Diarrheal Disease in Tropical Regions.

    Science.gov (United States)

    Makendi, Carine; Page, Andrew J; Wren, Brendan W; Le Thi Phuong, Tu; Clare, Simon; Hale, Christine; Goulding, David; Klemm, Elizabeth J; Pickard, Derek; Okoro, Chinyere; Hunt, Martin; Thompson, Corinne N; Phu Huong Lan, Nguyen; Tran Do Hoang, Nhu; Thwaites, Guy E; Le Hello, Simon; Brisabois, Anne; Weill, François-Xavier; Baker, Stephen; Dougan, Gordon

    2016-02-01

    Salmonella enterica serovar Weltevreden (S. Weltevreden) is an emerging cause of diarrheal and invasive disease in humans residing in tropical regions. Despite the regional and international emergence of this Salmonella serovar, relatively little is known about its genetic diversity, genomics or virulence potential in model systems. Here we used whole genome sequencing and bioinformatics analyses to define the phylogenetic structure of a diverse global selection of S. Weltevreden. Phylogenetic analysis of more than 100 isolates demonstrated that the population of S. Weltevreden can be segregated into two main phylogenetic clusters, one associated predominantly with continental Southeast Asia and the other more internationally dispersed. Subcluster analysis suggested the local evolution of S. Weltevreden within specific geographical regions. Four of the isolates were sequenced using long read sequencing to produce high quality reference genomes. Phenotypic analysis in Hep-2 cells and in a murine infection model indicated that S. Weltevreden were significantly attenuated in these models compared to the classical S. Typhimurium reference strain SL1344. Our work outlines novel insights into this important emerging pathogen and provides a baseline understanding for future research studies.

  16. A Phylogenetic and Phenotypic Analysis of Salmonella enterica Serovar Weltevreden, an Emerging Agent of Diarrheal Disease in Tropical Regions.

    Science.gov (United States)

    Makendi, Carine; Page, Andrew J; Wren, Brendan W; Le Thi Phuong, Tu; Clare, Simon; Hale, Christine; Goulding, David; Klemm, Elizabeth J; Pickard, Derek; Okoro, Chinyere; Hunt, Martin; Thompson, Corinne N; Phu Huong Lan, Nguyen; Tran Do Hoang, Nhu; Thwaites, Guy E; Le Hello, Simon; Brisabois, Anne; Weill, François-Xavier; Baker, Stephen; Dougan, Gordon

    2016-02-01

    Salmonella enterica serovar Weltevreden (S. Weltevreden) is an emerging cause of diarrheal and invasive disease in humans residing in tropical regions. Despite the regional and international emergence of this Salmonella serovar, relatively little is known about its genetic diversity, genomics or virulence potential in model systems. Here we used whole genome sequencing and bioinformatics analyses to define the phylogenetic structure of a diverse global selection of S. Weltevreden. Phylogenetic analysis of more than 100 isolates demonstrated that the population of S. Weltevreden can be segregated into two main phylogenetic clusters, one associated predominantly with continental Southeast Asia and the other more internationally dispersed. Subcluster analysis suggested the local evolution of S. Weltevreden within specific geographical regions. Four of the isolates were sequenced using long read sequencing to produce high quality reference genomes. Phenotypic analysis in Hep-2 cells and in a murine infection model indicated that S. Weltevreden were significantly attenuated in these models compared to the classical S. Typhimurium reference strain SL1344. Our work outlines novel insights into this important emerging pathogen and provides a baseline understanding for future research studies. PMID:26867150

  17. The role of voltage-gated calcium channels in neurotransmitter phenotype specification: Coexpression and functional analysis in Xenopus laevis

    OpenAIRE

    Lewis, Brittany B.; Miller, Lauren E.; Herbst, Wendy A; Saha, Margaret S.

    2014-01-01

    Calcium activity has been implicated in many neurodevelopmental events, including the specification of neurotransmitter phenotypes. Higher levels of calcium activity lead to an increased number of inhibitory neural phenotypes, whereas lower levels of calcium activity lead to excitatory neural phenotypes. Voltage-gated calcium channels (VGCCs) allow for rapid calcium entry and are expressed during early neural stages, making them likely regulators of activity-dependent neurotransmitter phenoty...

  18. Retrospective analysis of cohort database: Phenotypic variability in a large dataset of patients confirmed to have homozygous familial hypercholesterolemia.

    Science.gov (United States)

    Raal, Frederick J; Sjouke, Barbara; Hovingh, G Kees; Isaac, Barton F

    2016-06-01

    These data describe the phenotypic variability in a large cohort of patients confirmed to have homozygous familial hypercholesterolemia. Herein, we describe the observed relationship of treated low-density lipoprotein cholesterol with age. We also overlay the low-density lipoprotein receptor gene (LDLR) functional status with these phenotypic data. A full description of these data is available in our recent study published in Atherosclerosis, "Phenotype Diversity Among Patients With Homozygous Familial Hypercholesterolemia: A Cohort Study" (Raal et al., 2016) [1]. PMID:27182539

  19. Retrospective analysis of cohort database: Phenotypic variability in a large dataset of patients confirmed to have homozygous familial hypercholesterolemia

    OpenAIRE

    Raal, Frederick J.; Sjouke, Barbara; Hovingh, G. Kees; Isaac, Barton F.

    2016-01-01

    These data describe the phenotypic variability in a large cohort of patients confirmed to have homozygous familial hypercholesterolemia. Herein, we describe the observed relationship of treated low-density lipoprotein cholesterol with age. We also overlay the low-density lipoprotein receptor gene (LDLR) functional status with these phenotypic data. A full description of these data is available in our recent study published in Atherosclerosis, “Phenotype Diversity Among Patients With Homozygou...

  20. Anchors as Semantic Primes in Value Construction: An EEG Study of the Anchoring Effect.

    Directory of Open Access Journals (Sweden)

    Qingguo Ma

    Full Text Available Previous research regarding anchoring effects has demonstrated that human judgments are often assimilated to irrelevant information. Studies have demonstrated that anchors influence the economic valuation of various products and experiences; however, the cognitive explanations of this effect remain controversial, and its neural mechanisms have rarely been explored. In the current study, we conducted an electroencephalography (EEG experiment to investigate the anchoring effect on willingness to accept (WTA for an aversive hedonic experience and the role of anchors in this judgment heuristic. The behavioral results demonstrated that random numbers affect participants' WTA for listening to pieces of noise. The participants asked for higher pay after comparing their WTA with higher numbers. The EEG results indicated that anchors also influenced the neural underpinnings of the valuation process. Specifically, when a higher anchor number was drawn, larger P2 and late positive potential amplitudes were elicited, reflecting the anticipation of more intensive pain from the subsequent noise. Moreover, higher anchors induced a stronger theta band power increase compared with lower anchors when subjects listened to the noises, indicating that the participants felt more unpleasant during the actual experience of the noise. The levels of unpleasantness during both anticipation and experience were consistent with the semantic information implied by the anchors. Therefore, these data suggest that a semantic priming process underlies the anchoring effect in WTA. This study provides proof for the robustness of the anchoring effect and neural evidence of the semantic priming model. Our findings indicate that activated contextual information, even seemingly irrelevant, can be embedded in the construction of economic value in the brain.

  1. Anchors as Semantic Primes in Value Construction: An EEG Study of the Anchoring Effect.

    Science.gov (United States)

    Ma, Qingguo; Li, Diandian; Shen, Qiang; Qiu, Wenwei

    2015-01-01

    Previous research regarding anchoring effects has demonstrated that human judgments are often assimilated to irrelevant information. Studies have demonstrated that anchors influence the economic valuation of various products and experiences; however, the cognitive explanations of this effect remain controversial, and its neural mechanisms have rarely been explored. In the current study, we conducted an electroencephalography (EEG) experiment to investigate the anchoring effect on willingness to accept (WTA) for an aversive hedonic experience and the role of anchors in this judgment heuristic. The behavioral results demonstrated that random numbers affect participants' WTA for listening to pieces of noise. The participants asked for higher pay after comparing their WTA with higher numbers. The EEG results indicated that anchors also influenced the neural underpinnings of the valuation process. Specifically, when a higher anchor number was drawn, larger P2 and late positive potential amplitudes were elicited, reflecting the anticipation of more intensive pain from the subsequent noise. Moreover, higher anchors induced a stronger theta band power increase compared with lower anchors when subjects listened to the noises, indicating that the participants felt more unpleasant during the actual experience of the noise. The levels of unpleasantness during both anticipation and experience were consistent with the semantic information implied by the anchors. Therefore, these data suggest that a semantic priming process underlies the anchoring effect in WTA. This study provides proof for the robustness of the anchoring effect and neural evidence of the semantic priming model. Our findings indicate that activated contextual information, even seemingly irrelevant, can be embedded in the construction of economic value in the brain.

  2. Causes analysis and treatment for rock-anchored cracks in underground workshop%地下厂房岩锚梁裂缝成因分析及处理

    Institute of Scientific and Technical Information of China (English)

    龚少红; 邓瞻; 张恩宝

    2011-01-01

    In light of rock-anchored cracks occurring in underground workshop excavation of Guandi hydropower station, integrating with in-situ geological conditions and monitoring data, the paper analyzes and studies rock-anchored cracking causes, puts forward chemical grouting processing measures, and makes specific illustration, with a view to guarantee the stability and security of rock-anchored beam.%针对官地水电站厂房下卧开挖过程中出现的岩锚梁裂缝,结合现场地质条件、监测数据,对岩锚梁裂缝的成因进行详细的分析研究后提出了对其裂缝进行化学灌浆处理措施,并作了具体阐述,以保证岩锚梁的稳定性和安全性。

  3. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. 4. Nested analyses with cladogram uncertainty and recombination

    Energy Technology Data Exchange (ETDEWEB)

    Templeton, A.R. (Washington Univ., St. Louis, MO (United States)); Sing, C.F. (Univ. of Michigan, Ann Arbor (United States))

    1993-06-01

    The authors previously developed an analytical strategy based on cladistic theory to identify subsets of haplotypes that are associated with significant phenotypic deviations. Their initial approach was limited to segments of DNA in which little recombination occurs. In such cases, a cladogram can be constructed from the restriction site data to estimate the evolutionary steps that interrelate the observed haplotypes to one another. The cladogram is then used to define a nested statistical design for identifying mutational steps associated with significant phenotypic deviations. The central assumption behind this strategy is that a mutation responsible for a particular phenotypic effect is embedded within the evolutionary history that is represented by the cladogram. The power of this approach depends on the accuracy of the cladogram in portraying the evolutionary history of the DNA region. This accuracy can be diminished both by recombination and by uncertainty in the estimated cladogram topology. In a previous paper, the authors presented an algorithm for estimating the set of likely cladograms and recombination events. In this paper they present an algorithm for defining a nested statistical design under cladogram uncertainty and recombination. Given the nested design, phenotypic associations can be examined using either a nested analysis of variance (for haploids or homozygous strains) or permutation testing (for outcrossed, diploid gene regions). In this paper they extend this analytical strategy to include categorical phenotypes in addition to quantitative phenotypes. Some worked examples are presented using Drosophila data sets. These examples illustrate that having some recombination may actually enhance the biological inferences that may be derived from a cladistic analysis. In particular, recombination can be used to assign a physical localization to a given subregion for mutations responsible for significant phenotypic effects. 14 refs., 10 figs., 7 figs.

  4. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. IV. Nested analyses with cladogram uncertainty and recombination.

    Science.gov (United States)

    Templeton, A R; Sing, C F

    1993-06-01

    We previously developed an analytical strategy based on cladistic theory to identify subsets of haplotypes that are associated with significant phenotypic deviations. Our initial approach was limited to segments of DNA in which little recombination occurs. In such cases, a cladogram can be constructed from the restriction site data to estimate the evolutionary steps that interrelate the observed haplotypes to one another. The cladogram is then used to define a nested statistical design for identifying mutational steps associated with significant phenotypic deviations. The central assumption behind this strategy is that a mutation responsible for a particular phenotypic effect is embedded within the evolutionary history that is represented by the cladogram. The power of this approach depends on the accuracy of the cladogram in portraying the evolutionary history of the DNA region. This accuracy can be diminished both by recombination and by uncertainty in the estimated cladogram topology. In a previous paper, we presented an algorithm for estimating the set of likely claodgrams and recombination events. In this paper we present an algorithm for defining a nested statistical design under cladogram uncertainty and recombination. Given the nested design, phenotypic associations can be examined using either a nested analysis of variance (for haploids or homozygous strains) or permutation testing (for outcrossed, diploid gene regions). In this paper we also extend this analytical strategy to include categorical phenotypes in addition to quantitative phenotypes. Some worked examples are presented using Drosophila data sets. These examples illustrate that having some recombination may actually enhance the biological inferences that may derived from a cladistic analysis. In particular, recombination can be used to assign a physical localization to a given subregion for mutations responsible for significant phenotypic effects.

  5. Waardenburg syndrome type I: Dental phenotypes and genetic analysis of an extended family

    OpenAIRE

    Sólia-Nasser, Luciano; de Aquino, Sibele-Nascimento; Paranaíba, Lívia-Maris-R.; Gomes, Andreia; dos-Santos-Neto, Pedro; Coletta, Ricardo-D.; Cardoso, Aline-Francoise; Frota, Ana-Cláudia; Martelli-Júnior, Hercílio

    2016-01-01

    Background The aim of this study was to describe the pattern of inheritance and the clinical features in a large family with Waardenburg syndrome type I (WS1), detailing the dental abnormalities and screening for PAX3 mutations. Material and Methods To characterize the pattern of inheritance and clinical features, 29 family members were evaluated by dermatologic, ophthalmologic, otorhinolaryngologic and orofacial examination. Molecular analysis of the PAX3 gene was performed. Results The pedi...

  6. Phenotypic analysis and molecular characterization of an allelic mutant of the D61 gene in rice

    Directory of Open Access Journals (Sweden)

    Yanan Gao

    2014-08-01

    Full Text Available Brassinosteroids (BRs are a class of plant-specific steroidal hormones that play important roles in multiple biological processes. In this paper, a classic rice mutant gsor300084, showing erect leaves and semi-dwarf stature, was characterized. Morphological analysis in darkness showed that the mesocotyl of the gsor300084 mutant did not elongate when grown in darkness. Coleoptile elongation and root growth were less affected by the exogenous application of brassinolide (BL, the most active form of BR, in gsor300084 than in the wild-type rice variety Matsumae. Lamina joint bending analysis also showed that gsor300084 was less sensitive to exogenous BL than Matsumae. These results suggested that the gsor300084 mutant is defective in BR sensitivity. Map-based cloning indicated that gsor300084 is a novel allelic mutant of the DWARF61 (D61 gene, which encodes the putative BR receptor OsBRI1. A single-base mutation appears in the LRR domain of OsBRI1, changing the 444th amino acid from tryptophan (W to arginine (R. Subcellular localization analysis suggested that both the wild-type and mutant OsBRI1 protein are localized at the cytoplasmic membrane. Structure modeling revealed that the W444R substitution may affect the perception of BRs by the LRR domain.

  7. Phenotypic and genome-wide analysis of an antibiotic-resistant small colony variant (SCV of Pseudomonas aeruginosa.

    Directory of Open Access Journals (Sweden)

    Qing Wei

    Full Text Available BACKGROUND: Small colony variants (SCVs are slow-growing bacteria, which often show increased resistance to antibiotics and cause latent or recurrent infections. It is therefore important to understand the mechanisms at the basis of this phenotypic switch. METHODOLOGY/PRINCIPAL FINDINGS: One SCV (termed PAO-SCV was isolated, showing high resistance to gentamicin and to the cephalosporine cefotaxime. PAO-SCV was prone to reversion as evidenced by emergence of large colonies with a frequency of 10(-5 on media without antibiotics while it was stably maintained in presence of gentamicin. PAO-SCV showed a delayed growth, defective motility, and strongly reduced levels of the quorum sensing Pseudomonas quinolone signal (PQS. Whole genome expression analysis further suggested a multi-layered antibiotic resistance mechanism, including simultaneous over-expression of two drug efflux pumps (MexAB-OprM, MexXY-OprM, the LPS modification operon arnBCADTEF, and the PhoP-PhoQ two-component system. Conversely, the genes for the synthesis of PQS were strongly down-regulated in PAO-SCV. Finally, genomic analysis revealed the presence of mutations in phoP and phoQ genes as well as in the mexZ gene encoding a repressor of the mexXY and mexAB-oprM genes. Only one mutation occurred only in REV, at nucleotide 1020 of the tufA gene, a paralog of tufB, both encoding the elongation factor Tu, causing a change of the rarely used aspartic acid codon GAU to the more common GAC, possibly causing an increase of tufA mRNA translation. High expression of phoP and phoQ was confirmed for the SCV variant while the revertant showed expression levels reduced to wild-type levels. CONCLUSIONS: By combining data coming from phenotypic, gene expression and proteome analysis, we could demonstrate that resistance to aminoglycosides in one SCV mutant is multifactorial including overexpression of efflux mechanisms, LPS modification and is accompanied by a drastic down-regulation of the

  8. Phenotype and genotype analysis of a Chinese family with prelingual X-linked hereditary hearing impairment

    Institute of Scientific and Technical Information of China (English)

    HAN Bing; CHENG Jing; YANG Shu-zhi; CAO Ju-yang; SHEN Wei-dong; JI Fei; KANG Dong-yang; ZHANG Xin; DAI Pu; YUAN Hui-jun

    2009-01-01

    Background X-linked hearing impairment is clinically and genetically a heterogeneous disease.Although many disorders manifest with hearing loss,a limited number of sex-linked loci and only one gene (POU3F4) have been shown to be implicated in X-linked non-syndromic hearing impairment.In the present study,we have performed a clinical and genetic analysis of a Chinese family with X-linked non-syndromic hearing loss,with emphasis on audiological findings and genomic mapping.Methods The clinical features of Family JX01 were evaluated by physical and audiometric examination in eighteen family members.Mutation screening of POU3F4 was identified by polymerase chain reaction (PCR) amplification and sequencing.Molecular evaluation consisted of X-chromosome wide genotyping by microsatellite makers (STR),followed by analyzing using MLINK computer program.Results Five affected males demonstrated bilateral,symmetrical sensorineural and profound hearing loss.The hearing impairment started prelingual.The female carriers did not have any complain of hearing loss,however,two of them were tested with milder loss with high frequency.No causative mutations in POU3F4 gene were detected by DNA sequencing.Linkage analysis indicated that the responsible gene was linked to locus DXS1227 (maximum lod score=2.04 at θ=0).Conclusions The affected males in Family JX01 have profound prelingual sensorineural hearing impairment,In addition,two female carriers showed mild to moderate hearing losses.However,none of females complained of any hearing loss.Analysis of hereditary deafness in this family mapped most compatibly to the Xq27.2.

  9. Phenotypic Variability and Diversity Analysis of Bean Traits of Some Cocoa Hybrids in Nigeria

    Directory of Open Access Journals (Sweden)

    A.V. Oyedokun

    2011-03-01

    Full Text Available It is essential to understand the economic potential and superiority among cocoa hybrids. Therefore, the present study aims at detecting variability among cocoa hybrids for bean index in Nigeria. Dried bean of fourteen genotypes of cocoa were evaluated for their bean values. Analysis of variance (ANOVA was used to understand the variability among the fourteen genotypes and Principal Component Analysis (PCA was employed to identify distinguishing traits and the grouping of the genotypes based on similarities. The fourteen cocoa genotypes were significantly (p≤0.05 different from each other with respect to weight of one bean, bean length, width, thickness, 100 bean weight, bean length to width, length to thickness and width to thickness ratio. All the studied morphometric characters exhibited high (>70% broad sense heritability. G8, the hybrid between T53/5 and N38 was the most superior genotype for bean weight and some other bean characteristics. The mass of seventy-four dried cocoa bean of G8 approximated 100 g. The first three Principal Component axes explained 91% of the total variation and the PCA grouped the fourteen genotypes into four distinct clusters. Genotypes could be selected for specific traits and improvement of traits seemed to be genetically reliable.

  10. Standardized, systemic phenotypic analysis of Umod(C93F and Umod(A227T mutant mice.

    Directory of Open Access Journals (Sweden)

    Elisabeth Kemter

    Full Text Available Uromodulin-associated kidney disease (UAKD summarizes different clinical features of an autosomal dominant heritable disease syndrome in humans with a proven uromodulin (UMOD mutation involved. It is often characterized by hyperuricemia, gout, alteration of urine concentrating ability, as well as a variable rate of disease progression inconstantly leading to renal failure and histological alterations of the kidneys. We recently established the two Umod mutant mouse lines Umod(C93F and Umod(A227T on the C3H inbred genetic background both showing kidney defects analogous to those found in human UAKD patients. In addition, disease symptoms were revealed that were not yet described in other published mouse models of UAKD. To examine if further organ systems and/or metabolic pathways are affected by Umod mutations as primary or secondary effects, we describe a standardized, systemic phenotypic analysis of the two mutant mouse lines Umod(A227T and Umod(C93F in the German Mouse Clinic. Different genotypes as well as different ages were tested. Beside the already published changes in body weight, body composition and bone metabolism, the influence of the Umod mutation on energy metabolism was confirmed. Hematological analysis revealed a moderate microcytic and erythropenic anemia in older Umod mutant mice. Data of the other analyses in 7-10 month-old mutant mice showed single small additional effects.

  11. Monitoring ground anchor using non-destructive ground anchor integrity test (NDT-GRANIT)

    Energy Technology Data Exchange (ETDEWEB)

    Robbany, Z., E-mail: zdrobbany@gmail.com; Handayani, G., E-mail: gunawanhandayani@gmail.com [Earth Physics and Complex System Laboratory, Department of Physics, Institut Teknologi Bandung, Ganesha 10 Bandung, Indonesia 40132 (Indonesia)

    2015-09-30

    Monitoring at ground anchor commonly uses a pull out test method, therefor we developing a non-destructive ground anchor integrity testing (NDT-GRANIT). NDT-GRANIT using the principle of seismic waves that have been modified into form of sweep signal, the signal will be demodulated, filtered, and Fourier transformation (inverse discrete Fourier transform) so the data can be interpreted reflected wave from the ground anchor. The method was applied to determine whether the ground anchor still gripped in the subsurface by looking the attenuation of the wave generated sources. From the result we can see that ground anchor does not grip. To validate the results of the comparison method of measurement used pile integrity test.

  12. Polymer's anchoring behavior in liquid crystal cells

    Science.gov (United States)

    Cui, Yue

    The current dissertation mainly discusses about the polymers anchoring behavior in liquid crystal cells in two aspects: surface interaction and bulk interaction. The goal of the research is to understand the fundamental physics of anchoring strength and apply the knowledge to liquid crystal display devices. Researchers proposed two main contributors to the surface anchoring strength: the micro grooves generated by external force and the polymer chain's alignment. Both of them has experimental proofs. In the current study, explorations were made to understand the mechanisms of surface anchoring strength and easy axis of surface liquid crystal provided by rubbed polymer alignment layer. The work includes not only the variation of the alignment layer itself such as thickness(Chapter 3) and polymer side chain (Chapter 5), but also the variation of external conditions such as temperature (Chapter 4) and rubbing condition (Chapter 6). To determine the polar and azimuthal anchoring strengths, Rapini-Papoular's expression was applied. However, it was discovered that higher order terms may be required in order to fit the experimental result or theoretically predict unique anchoring behaviors (Chapter 2, Chapter 6). SEM and AFM technologies were introduced to gather the actual structures of polymer alignment layer and extrapolate the alignment of liquid crystal in a micro scale. The result shows that the anchoring strength can be adjusted by the layer thickness, side chain structure, while the easy axis direction can be adjusted by a second rubbing direction. In addition, different anchoring conditions combined with liquid crystal's elastic energy can generate quite different forms of liquid crystals (Chapter 7). In the study of bulk alignment, the main contrition from the current dissertation is applying the understanding of anchoring behavior to optimizing actual switchable devices. Conventional PDLC performance can be tuned with the knowledge of the polymer and the liquid

  13. Relationship between commercially available DNA analysis and phenotypic observations on beef quality and tenderness.

    Science.gov (United States)

    Magolski, J D; Buchanan, D S; Maddock-Carlin, K R; Anderson, V L; Newman, D J; Berg, E P

    2013-11-01

    Warner-Bratzler shear force values from 560 mixed breed heifers and steers were used to determine estimates of genetic selection. Cattle were marketed from 2008 to 2011, and included five feedlot based research projects at the North Dakota State University-Carrington Research Extension Center. Samples were collected for IGENITY® analysis providing information that included selection indices and estimated breeding values for carcass traits. DNA-based test results were compared with actual carcass measurements. Marbling accounted for over 10% of the variation in WBSF while hot carcass weight was the second most influential carcass trait accounting for 4% (Pgrade, and fat thickness were low (R(2)=0.14, 0.02, 0.03, 0.03, and 0.02, respectively). Therefore selecting cattle for a higher degree of marbling and feeding a diet that meets or exceeds recommended nutrients for growth are the most important factors influencing beef tenderness and acceptability. PMID:23793083

  14. DESCRIPTIVE AND DISCRIMINATORY SIGNIFICANCE OF POD PHENOTYPIC TRAITS FOR DIVERSITY ANALYSIS OF COCOA GENOTYPES

    Directory of Open Access Journals (Sweden)

    Daniel B. Adewale

    2013-12-01

    Full Text Available Intra-specific genetic diversity analysis precedes crop breeding proposal for species improvement. Sixteen and twenty-four parental and hybrid cocoa genotypes were respectively laid out in a randomized complete block design of six replications at Ibadan, Nigeria. A sampling unit of fifteen uniformly ripe pods was collected for assessment from each plot. Six quantitative data from the pods were subjected to statistical analysis. Highly significant (P < 0.0001 variability existed among the 40 genotypes. Range of performance of the genotypes were: pod weight (0.43 – 0.86kg, pod length (15.9 – 27.96cm, pod girth (21.51 – 34.07cm, pod thickness (1.26 – 5.71cm, number of beans per pod (20 - 51 and bean weight per pod (0.017 - 0.41kg. Positive and significant (P < 0.001 correlation existed between pod weight and length, pod girth and bean number/pod. The mean Gower genetic distance among the 40 genotypes was 0.228; the least (0.023 existed between G25 and G30 while the highest (0.529 was between G17 and G35. The first three principal component axes explained 73% of the total variation. Three distinct groups emerged from the Ward clustering technique. Significant (P<0.05 intra and inter cluster variability existed in the study. High genetic diversity lies within the studied population. Pod traits were important descriptors for cocoa genotypes classification.

  15. Analysis of polar urinary metabolites for metabolic phenotyping using supercritical fluid chromatography and mass spectrometry.

    Science.gov (United States)

    Sen, Arundhuti; Knappy, Christopher; Lewis, Matthew R; Plumb, Robert S; Wilson, Ian D; Nicholson, Jeremy K; Smith, Norman W

    2016-06-01

    Supercritical fluid chromatography (SFC) is frequently used for the analysis and separation of non-polar metabolites, but remains relatively underutilised for the study of polar molecules, even those which pose difficulties with established reversed-phase (RP) or hydrophilic interaction liquid chromatographic (HILIC) methodologies. Here, we present a fast SFC-MS method for the analysis of medium and high-polarity (-7≤cLogP≤2) compounds, designed for implementation in a high-throughput metabonomics setting. Sixty polar analytes were first screened to identify those most suitable for inclusion in chromatographic test mixtures; then, a multi-dimensional method development study was conducted to determine the optimal choice of stationary phase, modifier additive and temperature for the separation of such analytes using SFC. The test mixtures were separated on a total of twelve different column chemistries at three different temperatures, using CO2-methanol-based mobile phases containing a variety of polar additives. Chromatographic performance was evaluated with a particular emphasis on peak capacity, overall resolution, peak distribution and repeatability. The results suggest that a new generation of stationary phases, specifically designed for improved robustness in mixed CO2-methanol mobile phases, can improve peak shape, peak capacity and resolution for all classes of polar analytes. A significant enhancement in chromatographic performance was observed for these urinary metabolites on the majority of the stationary phases when polar additives such as ammonium salts (formate, acetate and hydroxide) were included in the organic modifier, and the use of water or alkylamine additives was found to be beneficial for specific subsets of polar analytes. The utility of these findings was confirmed by the separation of a mixture of polar metabolites in human urine using an optimised 7min gradient SFC method, where the use of the recommended column and co

  16. Mutational analysis of ATP7B gene and the genotype-phenotype correlation in patients with Wilson's disease in Serbia

    Directory of Open Access Journals (Sweden)

    Tomić Aleksandra

    2013-01-01

    Full Text Available Background/Aim. Wilson’s disease (WD is an autosomal-recessive disorder which is characterized with a marked clinical heterogeneity. The gene responsible for WD is located in 13q14.3 chromosome, contains 21 exons and codes for copper specific transporting P-type adenosinetriphosphatase (ATPase (ATP7B. Mutations in ATP7B gene change biosynthetic and transporting role of ATPase in cell leading to damaged billiary excretion of copper and its accumulation in the liver, brain, cornea and other tissues. Until now, it has been described more than 400 mutations in ATP7B gene with characteristic geographic distribution. The aim of this study was to assess the spectrum of mutations of ATP7B gene on a large number of patients in Serbian population and to make a correlation between particular genotypes and specific phenotypes. Methods. Eighty-six consecutive patients with WD from WD Clinical Research programme were included in this study. Genetic analysis was performed by direct gene sequencing method. Results. Mutations in ATP7B gene were found in 93% analyzed patients (81.4% of all alleles analyzed. Thirteen mutations were identified, one of which (G998E was the novel one, so far undescribed in the literature. The most frequent mutation in our population was H1069Q, which was present in 38.4% patients, and the second most frequent mutation was 2304-2305insC (11.6%. Also, a great number of gene polymorphisms of DNA sequences, which do not disturb the ATP7B gene function, was identified. Although neurological form of the disease was more frequent in the group of homozygous for H1069Q and the group of non- H1069Q carriers, there was no statistically significant difference between the groups. Conclusion. Our research showed that genetic diagnosis of WD can be done in 80% of cases by analysis of 5 most common mutations in our population, which facilitate diagnosis significantly. There was no correlation between different genotypes and specific phenotypic

  17. Morphometric Analysis of the Host Effect on Phenotypical Variation of Belminus ferroae (Hemiptera: Triatominae

    Directory of Open Access Journals (Sweden)

    Claudia Magaly Sandoval Ramirez

    2015-01-01

    Full Text Available The Triatominae subfamily includes hematophagous insects, well known for their role as vectors for the Trypanosoma cruzi parasite, etiologic agent of Chagas’ disease. Belminus ferroae is a triatomine that showed an increased demographic fitness when cockroaches were used as hosts. Here we compare the centroid size (CS and wing shape between B. ferroae parents and three successive generations (O1, O2, and O3 of their offspring fed on cockroaches or mice under laboratory conditions. Morphometric analysis of the wings bugs fed on cockroaches showed a significant reduction in CS in both sexes among all generations. Sexual size dimorphism (SSD was observed in the insects fed on cockroaches (O2 and O3, as well as those bugs fed on mice (O2. Differences in the shape of wings were observed between parental and offspring wings when fed on mice, but not in males (O1, O2, and O3 or females (O1 and O2 fed on cockroaches. There was a greater wing shape similarity between the cockroach-fed offspring and their parents according to the Mahalanobis distances. Our results support the idea of higher adaptation of this Triatominae with arthropod hosts.

  18. Integrating binary traits with quantitative phenotypes for association mapping of multivariate phenotypes.

    Science.gov (United States)

    Mukhopadhyay, Indranil; Saha, Sujayam; Ghosh, Saurabh

    2011-01-01

    Clinical binary end-point traits are often governed by quantitative precursors. Hence it may be a prudent strategy to analyze a clinical end-point trait by considering a multivariate phenotype vector, possibly including both quantitative and qualitative phenotypes. A major statistical challenge lies in integrating the constituent phenotypes into a reduced univariate phenotype for association analyses. We assess the performances of certain reduced phenotypes using analysis of variance and a model-free quantile-based approach. We find that analysis of variance is more powerful than the quantile-based approach in detecting association, particularly for rare variants. We also find that using a principal component of the quantitative phenotypes and the residual of a logistic regression of the binary phenotype on the quantitative phenotypes may be an optimal method for integrating a binary phenotype with quantitative phenotypes to define a reduced univariate phenotype. PMID:22373144

  19. Time-varying reliability analysis of anchor system of rock slopes with double slide blocks%双滑块边坡锚固系统时变可靠性分析

    Institute of Scientific and Technical Information of China (English)

    陈昌富; 成晓炜

    2012-01-01

    考虑锚杆锚固段从岩体中拔出、拉杆拉断、拉杆从注浆体中拔出等失效模式,利用系统可靠性原理和极限平衡分析方法,并基于Monte-Carlo抽样原理提出双滑块岩质边坡锚固系统破坏概率的直接求解方法.同时考虑锚杆钢筋的腐蚀与软弱滑动面抗剪强度c、φ的时变性,建立了考虑锚杆多失效模式双滑块岩质边坡锚固系统的时变可靠性模型.算例计算结果表明:软弱滑动面上的强度参数c、φ的时变性和注浆体与围岩之间的抗力时变性对锚固系统的破坏概率的影响较大,而锚杆的腐蚀对锚固系统破坏概率的影响不明显.%Considering the multiple failure modes of anchor system such as pulling out of grouting mass from surrounding rock, the tensile failure of the pull rod and the shearing failure of interface between pull rod and grouting mass, etc., applying systematical reliability principle and limit equilibrium method, a direct solution of failure probability of anchor system of rock slope with double slide blocks is proposed based on Monte Carlo sample principle. Meanwhile, taking the time variation of shear strength indices of soft sliding surface c and φand the erosion of anchor bars into account, a time-variation reliability model of anchor system of rock slope with double slide blocks in consideration of multiple failure modes of anchor is established. The calculation results of examples show that the time-variations of shear strength indices of soft sliding surface c,φand the resistance between grouting body and surrounding rock have great impact on failure probability of anchor system, while erosion of anchor bars has less impact on it.

  20. Biomedical applications of glycosylphosphatidylinositol-anchored proteins

    Science.gov (United States)

    Heider, Susanne; Dangerfield, John A.

    2016-01-01

    Glycosylphosphatidylinositol (GPI)-anchored proteins (GPI-APs) use a unique posttranslational modification to link proteins to lipid bilayer membranes. The anchoring structure consists of both a lipid and carbohydrate portion and is highly conserved in eukaryotic organisms regarding its basic characteristics, yet highly variable in its molecular details. The strong membrane targeting property has made the anchors an interesting tool for biotechnological modification of lipid membrane-covered entities from cells through extracellular vesicles to enveloped virus particles. In this review, we will take a closer look at the mechanisms and fields of application for GPI-APs in lipid bilayer membrane engineering and discuss their advantages and disadvantages for biomedicine. PMID:27542385

  1. Analysis of large phenotypic variability of EEC and SHFM4 syndromes caused by K193E mutation of the TP63 gene.

    Directory of Open Access Journals (Sweden)

    Jianhua Wei

    Full Text Available EEC (ectrodactyly, ectodermal dysplasia, clefting; OMIM 604292 is an autosomal dominant developmental disorder resulting mainly from pathogenic mutations of the DNA-binding domain (DBD of the TP63 gene. In this study, we showed that K193E mutation in nine affected individuals of a four-generation kindred with a large degree of phenotypic variability causes four different syndromes or TP63-related disorders: EEC, Ectrodactyly-ectodermal dysplasia (EE, isolated ectodermal dysplasia, and isolated Split Hand/Foot Malformation type 4 (SHFM4. Genotype-phenotype and DBD structural modeling analysis showed that the K193-located loop L2-A is associated with R280 through hydrogen bonding interactions, while R280 mutations also often cause large phenotypic variability of EEC and SHFM4. Thus, we speculate that K193 and several other DBD mutation-associated syndromes may share similar pathogenic mechanisms, particularly in the case of the same mutation with different phenotypes. Our study and others also suggest that the phenotypic variability of EEC is attributed, at least partially, to genetic and/or epigenetic modifiers.

  2. Application Research on Nondestructive Testing Technology for Quality of Anchor Based on Elastic Wave Reflection Method

    Science.gov (United States)

    Xiao, G.; Zhou, L.

    2014-12-01

    Anchor technology has been widely used to reinforce slopes, underground caverns, deep excavations and the foundation of dams. It has attracted more and more attention of research worldwide on how to find a comfortable method to test the quality of anchoring systems. According to the characteristics of anchor systems, we set up the kinetic equations and mathematical models, then solved the models using ANSYS / LS-DYNA program. We found that the simulated mathematical models perfectly match the experimental data. By changing one of the parameters or the input conditions in the model, we were able to understand the characteristic response of excitation energy, excitation length, structural defects, rock quality, and different data acquisition methods. For short anchor systems (grouting density. The obtained values were consistent with the actual experimental data. We also demonstrated that the kinetic energy of the collected waves from the bottom of the anchor had very close relationship with the grouting density and the position of the structural defects. For long anchors (> 60 m), mostly cable anchors, since little research could be followed, we started our research from designing the instrument, writing the program for data acquisition and analysis. We designed and developed novel sensors and preamplifiers. We used vertical stack technology to effectively enhance the weak signals from the deeper interfaces. In data processing, in addition to the traditional filter method, we also explored the current technology of signal processing such as true amplitude recovery and deconvolution, which enabled us to obtain improved signal to noise ratio and sensing precision. Through the above mentioned systematical studies, we developed a reliable nondestructive test method for both short and long anchors based on elastic wave reflection. This research is funded by National Natural Science Foundation of China (Grant No. 41202223)

  3. Uplift of Symmetrical Anchor Plates by Using Grid-Fixed Reinforced Reinforcement in Cohesionless Soil

    Institute of Scientific and Technical Information of China (English)

    Hamed Niroumand; Khairul Anuar Kassim

    2014-01-01

    Uplift response of symmetrical anchor plates with and without grid fixed reinforced (GFR) reinforcement was evaluated in model tests and numerical simulations by Plaxis. Many variations of reinforcement layers were used to reinforce the sandy soil over symmetrical anchor plates. In the current research, different factors such as relative density of sand, embedment ratios, and various GFR parameters including size, number of layers, and the proximity of the layer to the symmetrical anchor plate were investigated in a scale model. The failure mechanism and the associated rupture surface were observed and evaluated. GFR, a tied up system made of fiber reinforcement polymer (FRP) strips and end balls, was connected to the geosynthetic material and anchored into the soil. Test results showed that using GFR reinforcement significantly improved the uplift capacity of anchor plates. It was found that the inclusion of one layer of GFR, which rested directly on the top of the anchor plate, was more effective in enhancing the anchor capacity itself than other methods. It was found that by including GFR the uplift response was improved by 29%. Multi layers of GFR proved more effective in enhancing the uplift capacity than a single GFR reinforcement. This is due to the additional anchorage provided by the GFR at each level of reinforcement. In general, the results show that the uplift capacity of symmetrical anchor plates in loose and dense sand can be significantly increased by the inclusion of GFR. It was also observed that the inclusion of GFR reduced the requirement for a large L/D ratio to achieve the required uplift capacity. The laboratory and numerical analysis results are found to be in agreement in terms of breakout factor and failure mechanism pattern.

  4. Digit ratios by computer-assisted analysis confirm lack of anatomical evidence of prenatal androgen exposure in clinical phenotypes of polycystic ovary syndrome

    Directory of Open Access Journals (Sweden)

    Lehotay Denis C

    2010-12-01

    Full Text Available Abstract Background We recently showed that women with four clinical phenotypes of polycystic ovary syndrome (PCOS do not demonstrate anatomical evidence of elevated prenatal androgen exposure as judged by a lower ratio of the index (2D to ring (4D finger. However, those findings conflicted with a previous study where women with PCOS had lower right hand 2D:4D compared to healthy female controls. Both these studies used Vernier calipers to measure finger lengths - a method recently shown to be less reliable at obtaining finger length measurements than computer-assisted analysis. Methods Ninety-six women diagnosed with PCOS according to the 2003 Rotterdam criteria had their finger lengths measured with computer-assisted analysis. Participants were categorized into four recognized phenotypes of PCOS and their 2D:4D compared to healthy female controls (n = 48 and men (n = 50. Results Digit ratios assessed by computer-assisted analysis in women with PCOS did not differ from female controls, but were significantly lower in men. When subjects were stratified by PCOS phenotype, 2D:4D did not differ among phenotypes or when compared to female controls. Conclusion Computer-assisted measurements validated that digit ratios of women with PCOS do not show anatomical evidence of increased prenatal androgen exposure.

  5. High-speed video gait analysis reveals early and characteristic locomotor phenotypes in mouse models of neurodegenerative movement disorders.

    Science.gov (United States)

    Preisig, Daniel F; Kulic, Luka; Krüger, Maik; Wirth, Fabian; McAfoose, Jordan; Späni, Claudia; Gantenbein, Pascal; Derungs, Rebecca; Nitsch, Roger M; Welt, Tobias

    2016-09-15

    Neurodegenerative diseases of the central nervous system frequently affect the locomotor system resulting in impaired movement and gait. In this study we performed a whole-body high-speed video gait analysis in three different mouse lines of neurodegenerative movement disorders to investigate the motor phenotype. Based on precise computerized motion tracking of all relevant joints and the tail, a custom-developed algorithm generated individual and comprehensive locomotor profiles consisting of 164 spatial and temporal parameters. Gait changes observed in the three models corresponded closely to the classical clinical symptoms described in these disorders: Muscle atrophy due to motor neuron loss in SOD1 G93A transgenic mice led to gait characterized by changes in hind-limb movement and positioning. In contrast, locomotion in huntingtin N171-82Q mice modeling Huntington's disease with basal ganglia damage was defined by hyperkinetic limb movements and rigidity of the trunk. Harlequin mutant mice modeling cerebellar degeneration showed gait instability and extensive changes in limb positioning. Moreover, model specific gait parameters were identified and were shown to be more sensitive than conventional motor tests. Altogether, this technique provides new opportunities to decipher underlying disease mechanisms and test novel therapeutic approaches. PMID:27233823

  6. The Andean adaptive toolkit to counteract high altitude maladaptation: genome-wide and phenotypic analysis of the Collas.

    Directory of Open Access Journals (Sweden)

    Christina A Eichstaedt

    Full Text Available During their migrations out of Africa, humans successfully colonised and adapted to a wide range of habitats, including extreme high altitude environments, where reduced atmospheric oxygen (hypoxia imposes a number of physiological challenges. This study evaluates genetic and phenotypic variation in the Colla population living in the Argentinean Andes above 3500 m and compares it to the nearby lowland Wichí group in an attempt to pinpoint evolutionary mechanisms underlying adaptation to high altitude hypoxia. We genotyped 730,525 SNPs in 25 individuals from each population. In genome-wide scans of extended haplotype homozygosity Collas showed the strongest signal around VEGFB, which plays an essential role in the ischemic heart, and ELTD1, another gene crucial for heart development and prevention of cardiac hypertrophy. Moreover, pathway enrichment analysis showed an overrepresentation of pathways associated with cardiac morphology. Taken together, these findings suggest that Colla highlanders may have evolved a toolkit of adaptative mechanisms resulting in cardiac reinforcement, most likely to counteract the adverse effects of the permanently increased haematocrit and associated shear forces that characterise the Andean response to hypoxia. Regulation of cerebral vascular flow also appears to be part of the adaptive response in Collas. These findings are not only relevant to understand the evolution of hypoxia protection in high altitude populations but may also suggest new avenues for medical research into conditions where hypoxia constitutes a detrimental factor.

  7. A three-dimensional engineered tumour for spatial snapshot analysis of cell metabolism and phenotype in hypoxic gradients

    Science.gov (United States)

    Rodenhizer, Darren; Gaude, Edoardo; Cojocari, Dan; Mahadevan, Radhakrishnan; Frezza, Christian; Wouters, Bradly G.; McGuigan, Alison P.

    2016-02-01

    The profound metabolic reprogramming that occurs in cancer cells has been investigated primarily in two-dimensional cell cultures, which fail to recapitulate spatial aspects of cell-to-cell interactions as well as tissue gradients present in three-dimensional tumours. Here, we describe an engineered model to assemble three-dimensional tumours by rolling a scaffold-tumour composite strip. By unrolling the strip, the model can be rapidly disassembled for snapshot analysis, allowing spatial mapping of cell metabolism in concert with cell phenotype. We also show that the establishment of oxygen gradients within samples that are shaped by oxygen-dependent signalling pathways, as well as the consequential variations in cell growth, response to hypoxic gradients extending from normoxia to severe hypoxia, and therapy responsiveness, are consistent with those of tumours in vivo. Moreover, by using liquid chromatography tandem mass spectrometry, we mapped cellular metabolism and identified spatially defined metabolic signatures of cancer cells to reveal both known and novel metabolic responses to hypoxia.

  8. Starting point anchoring effects in choice experiments

    DEFF Research Database (Denmark)

    Ladenburg, Jacob; Olsen, Søren Bøye

    Anchoring is acknowledged as a potential source of considerable bias in Dichotomous Choice Contingent Valuation studies. Recently, another stated preference method known as Choice Experiments has gained in popularity as well as the number of applied studies. However, as the elicitation of prefere......Anchoring is acknowledged as a potential source of considerable bias in Dichotomous Choice Contingent Valuation studies. Recently, another stated preference method known as Choice Experiments has gained in popularity as well as the number of applied studies. However, as the elicitation...

  9. pBAM1: an all-synthetic genetic tool for analysis and construction of complex bacterial phenotypes

    Directory of Open Access Journals (Sweden)

    Arévalo-Rodríguez Miguel

    2011-02-01

    Full Text Available Abstract Background Since publication in 1977 of plasmid pBR322, many breakthroughs in Biology have depended on increasingly sophisticated vector platforms for analysis and engineering of given bacterial strains. Although restriction sites impose a certain format in the procedures for assembling cloned genes, every attempt thus far to standardize vector architecture and nomenclature has ended up in failure. While this state of affairs may still be tolerable for traditional one-at-a-time studies of single genes, the onset of systems and synthetic biology calls for a simplification -along with an optimization- of the currently unwieldy pool of genetic tools. Results The functional DNA sequences present in the natural bacterial transposon Tn5 have been methodically edited and refactored for the production of a multi-purpose genetic tool named pBAM1, which allows a range of manipulations in the genome of Gram-negative bacteria. This all-synthetic construct enhances the power of mini-transposon vectors for either de-construction or re-construction of phenotypes á la carte by incorporating features inspired in systems engineering: modularity, re-usability, minimization, and compatibility with other genetic tools. pBAM1 bears an streamlined, restriction site-freed and narrow-host range replication frame bearing the sequences of R6K oriV, oriT and an ampicillin resistance marker. These go along with a business module that contains a host-independent and hyperactive transposition platform for in vivo or in vitro insertion of desired DNA into the genome of the target bacterium. All functional sequences were standardized for a straightforward replacement by equivalent counterparts, if required. pBAM1 can be delivered into recipient cells by either mating or electroporation, producing transposon insertion frequencies of 1.8 × 10-3 and 1.02 × 10-7, respectively in the soil bacterium Pseudomonas putida. Analyses of the resulting clones revealed a 100% of

  10. In vitro analysis of the invasive phenotype of SUM 149, an inflammatory breast cancer cell line

    OpenAIRE

    Dharmawardhane Suranganie F; Wall Kristin M; Hoffmeyer Michaela R

    2005-01-01

    Abstract Background Inflammatory breast cancer (IBC) is the most lethal form of locally invasive breast cancer known. However, very little information is available on the cellular mechanisms responsible for manifestation of the IBC phenotype. To understand the unique phenotype of IBC, we compared the motile and adhesive interactions of an IBC cell line, SUM 149, to the non-IBC cell line SUM 102. Results Our results demonstrate that both IBC and non-IBC cell lines exhibit similar adhesive prop...

  11. A Dysmorphometric Analysis to Investigate Facial Phenotypic Signatures as a Foundation for Non-invasive Monitoring of Lysosomal Storage Disorders

    OpenAIRE

    Kung, Stefanie; Walters, Mark; Claes, Peter; Goldblatt, Jack; Le Souef, Peter; Baynam, Gareth

    2012-01-01

    Background: Some lysosomal storage disorders (LSDs), including Muccopolysaccharidosis type 1 (MPSI), are associated with characteristic facies. Methods such as three-dimensional (3D) facial scanning and geometric morphometric techniques can potentially generate detailed objective descriptions of these facial phenotypes. This approach can facilitate discriminating the inherent overlap in facial phenotypes within these disease spectra, and the non-invasive monitoring of disease progression and ...

  12. DYNAMIC ANALYSIS OF THE VERTICAL SOIL SLOPE SUPPORTED WITH PILE-ANCHOR SYSTEM SUBJECTED TO EARTHQUAKE WAVE%地震波作用下桩-锚支护切方直立土坡的动力响应分析

    Institute of Scientific and Technical Information of China (English)

    汪鹏程; 朱大勇; 孙玲玲

    2011-01-01

    桩-锚联合支护是边坡加固和治理工程中极为有效的支护形式。开展地震荷载作用下桩-锚支护土坡动力响应研究,对分析桩-锚支护土坡的抗震性能及在地震中的破坏机理,合理指导边坡支护抗震设计等方面都具有十分重要的意义。通过建立一个切方直立土坡概化模型,按常规设计参数建立桩-锚支护体系;通过数值分析获得边坡静力条件下应力-应变状态和桩-锚结构内力状态;在此基础上施加地震波,进行桩-锚支护边坡系统的动力分析,得到坡体速度、位移、土压力、坡顶拉应力及桩-锚结构的剪力、弯矩和锚杆轴力的动力响应,揭示桩-锚支护体系的动力特性。结果显示,桩-锚支护对边坡变形、整体稳定及坡顶拉应力都具有很好的控制作用,表明桩-锚支护体系具有相当好的抗震性能。%Pile-anchor system is widely applied in slope-reinforcing engineering.The study on dynamic response of the soil slope supported with pile-anchor system subjected to earthquake wave is very important to finding out failure mechanism and seismic character of the slope,and guiding slope reinforcing design.A vertical soil slope model with pile-anchor system was established,The stresses and strains,moments and shear forces of the pile and anchor axial force were obtained.By applying seismic wave dynamic analysis of the slope applied with piles and anchors was performed,and the velocities,displacements,soil pressures,tension stresses of the slope surface,shear forces and moments of the piles,and anchor axial forces dynamic response were obtained.Moreover,pile-anchor system dynamic character was displayed,the results showed that pile-anchor system could validly control the deformation,slope stability and tension stresses on slope top surface,and had very good anti-earthquake capability.

  13. An inferential study of the phenotype for the chromosome 15q24 microdeletion syndrome: a bootstrap analysis

    Science.gov (United States)

    Ramírez-Prado, Dolores; Cortés, Ernesto; Aguilar-Segura, María Soledad; Gil-Guillén, Vicente Francisco

    2016-01-01

    In January 2012, a review of the cases of chromosome 15q24 microdeletion syndrome was published. However, this study did not include inferential statistics. The aims of the present study were to update the literature search and calculate confidence intervals for the prevalence of each phenotype using bootstrap methodology. Published case reports of patients with the syndrome that included detailed information about breakpoints and phenotype were sought and 36 were included. Deletions in megabase (Mb) pairs were determined to calculate the size of the interstitial deletion of the phenotypes studied in 2012. To determine confidence intervals for the prevalence of the phenotype and the interstitial loss, we used bootstrap methodology. Using the bootstrap percentiles method, we found wide variability in the prevalence of the different phenotypes (3–100%). The mean interstitial deletion size was 2.72 Mb (95% CI [2.35–3.10 Mb]). In comparison with our work, which expanded the literature search by 45 months, there were differences in the prevalence of 17% of the phenotypes, indicating that more studies are needed to analyze this rare disease. PMID:26925314

  14. Identification, RNAi knockdown, and functional analysis of an ejaculate protein that mediates a postmating, prezygotic phenotype in a cricket.

    Directory of Open Access Journals (Sweden)

    Jeremy L Marshall

    Full Text Available Postmating, prezygotic phenotypes, especially those that underlie reproductive isolation between closely related species, have been a central focus of evolutionary biologists over the past two decades. Such phenotypes are thought to evolve rapidly and be nearly ubiquitous among sexually reproducing eukaryotes where females mate with multiple partners. Because these phenotypes represent interplay between the male ejaculate and female reproductive tract, they are fertile ground for reproductive senescence--as ejaculate composition and female physiology typically change over an individual's life span. Although these phenotypes and their resulting dynamics are important, we have little understanding of the proteins that mediate these phenotypes, particularly for species groups where postmating, prezygotic traits are the primary mechanism of reproductive isolation. Here, we utilize proteomics, RNAi, mating experiments, and the Allonemobius socius complex of crickets, whose members are primarily isolated from one another by postmating, prezygotic phenotypes (including the ability of a male to induce a female to lay eggs, to demonstrate that one of the most abundant ejaculate proteins (a male accessory gland-biased protein similar to a trypsin-like serine protease decreases in abundance over a male's reproductive lifetime and mediates the induction of egg-laying in females. These findings represent one of the first studies to identify a protein that plays a role in mediating both a postmating, prezygotic isolation pathway and reproductive senescence.

  15. Analysis of phenotype, genotype and serotype distribution in erythromycin-resistant group B streptococci isolated from vaginal flora in Southern Ireland.

    LENUS (Irish Health Repository)

    Kiely, R A

    2010-02-01

    The screening of 2000 women of childbearing age in Cork between 2004 and 2006 produced 37 erythromycin-resistant group B streptococcus (GBS) isolates. PCR analysis was performed to determine the basis for erythromycin resistance. The ermTR gene was most frequently expressed (n = 19), followed by the ermB gene (n = 8). Four isolates harboured the mefA gene. Six isolates yielded no PCR products. Some phenotype-genotype correlation was observed. All isolates expressing the mefA gene displayed the M phenotype whilst all those expressing ermB displayed the constitutive macrolide resistance (cMLS(B)) phenotype. Of 19 isolates that expressed the ermTR gene, 16 displayed the inducible macrolide resistance (iMLS(B)) phenotype. Serotype analysis revealed that serotypes III and V predominated in these isolates. The identification of two erythromycin-resistant serotype VIII isolates among this collection represents the first reported finding of erythromycin resistance in this serotype. A single isolate was non-typable using two latex agglutination serotyping kits.

  16. Defining new dental phenotypes using 3-D image analysis to enhance discrimination and insights into biological processes

    Science.gov (United States)

    Smith, Richard; Zaitoun, Halla; Coxon, Tom; Karmo, Mayada; Kaur, Gurpreet; Townsend, Grant; Harris, Edward F.; Brook, Alan

    2009-01-01

    Aims In studying aetiological interactions of genetic, epigenetic and environmental factors in normal and abnormal developments of the dentition, methods of measurement have often been limited to maximum mesio-distal and bucco-lingual crown diameters, obtained with hand-held calipers. While this approach has led to many important findings, there are potentially many other informative measurements that can be made to describe dental crown morphology. Advances in digital imaging and computer technology now offer the opportunity to define and measure new dental phenotypes in 3-D that have the potential to provide better anatomical discrimination and clearer insights into the underlying biological processes in dental development. Over recent years, image analysis in 2-D has proved to be a valuable addition to hand-measurement methods but a reliable and rapid 3-D method would increase greatly the morphological information obtainable from natural teeth and dental models. Additional measurements such as crown heights, surface contours, actual surface perimeters and areas, and tooth volumes would maximise our ability to discriminate between samples and to explore more deeply genetic and environmental contributions to observed variation. The research objectives were to investigate the limitations of existing methodologies and to develop and validate new methods for obtaining true 3-D measurements, including curvatures and volumes, in order to enhance discrimination to allow increased differentiation in studies of dental morphology and development. The validity of a new methodology for the 3-D measurement of teeth is compared against an established 2-D system. The intra- and inter-observer reliability of some additional measurements, made possible with a 3-D approach, are also tested. Methods and results From each of 20 study models, the permanent upper right lateral and upper left central incisors were separated and imaged independently by two operators using 2-D image

  17. The "Anchor" Method: Principle and Practice.

    Science.gov (United States)

    Selgin, Paul

    This report discusses the "anchor" language learning method that is based upon derivation rather than construction, using Italian as an example of a language to be learned. This method borrows from the natural process of language learning as it asks the student to remember whole expressions that serve as vehicles for learning both words and rules,…

  18. International Lunar Network (ILN) Anchor Nodes

    Science.gov (United States)

    Cohen, Barbara A.

    2009-01-01

    This slide presentation reviews the United States' contribution to the International Lunar Network (ILN) project, the Anchor Nodes project. The ILN is an initiative of 9 national space agencies to establish a set of robotic geophysical monitoring stations on the surface of the Moon. The project is aimed at furthering the understanding of the lunar composition, and interior structure.

  19. Anchor Stress Checking of Security Injection Tank

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    The intention of the calculating is to check the anchor stresses of the security injection tank to know whether the stress is satisfied the code requirements on the basis of all the reaction forces gained in the static, seismic and thermal stress results.

  20. The bone-anchored hearing aid

    DEFF Research Database (Denmark)

    Foghsgaard, Søren

    2014-01-01

    The bone-anchored hearing aid (Baha) was introduced in 1977 by Tjellström and colleagues and has now been used clinically for over 30 years. Generally, the outcomes are good, and several studies have shown improved audiological- and quality of life outcomes. The principle of the Baha is, that sound...

  1. Finding Chemical Anchors in the Kitchen

    Science.gov (United States)

    Haim, Liliana

    2005-01-01

    ''The Chemistry Kitchen'', a unit composed of five activities with kitchen elements for elementary students ages 9-11, introduces the children to the skills and chemical working ideas to be used later as anchors for chemical concepts. These activities include kitchen elements, determining the relative mass and so on.

  2. Predicting Anchor Links between Heterogeneous Social Networks

    CERN Document Server

    Sajadmanesh, Sina; Khodadadi, Ali

    2016-01-01

    People usually get involved in multiple social networks to enjoy new services or to fulfill their needs. Many new social networks try to attract users of other existing networks to increase the number of their users. Once a user (called source user) of a social network (called source network) joins a new social network (called target network), a new inter-network link (called anchor link) is formed between the source and target networks. In this paper, we concentrated on predicting the formation of such anchor links between heterogeneous social networks. Unlike conventional link prediction problems in which the formation of a link between two existing users within a single network is predicted, in anchor link prediction, the target user is missing and will be added to the target network once the anchor link is created. To solve this problem, we use meta-paths as a powerful tool for utilizing heterogeneous information in both the source and target networks. To this end, we propose an effective general meta-pat...

  3. Anchoring the Panic Disorder Severity Scale

    Science.gov (United States)

    Keough, Meghan E.; Porter, Eliora; Kredlow, M. Alexandra; Worthington, John J.; Hoge, Elizabeth A.; Pollack, Mark H.; Shear, M. Katherine; Simon, Naomi M.

    2012-01-01

    The Panic Disorder Severity Scale (PDSS) is a clinician-administered measure of panic disorder symptom severity widely used in clinical research. This investigation sought to provide clinically meaningful anchor points for the PDSS both in terms of clinical severity as measured by the Clinical Global Impression-Severity Scale (CGI-S) and to extend…

  4. Low Gravity Anchoring System Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Future sampling missions to the Moon, Mars and Asteroids will likely involve drilling and in-situ analysis from mobile robotic platforms in low gravity. Past...

  5. Stone anchors from the Okhamandal region, Gujarat Coast, India

    Digital Repository Service at National Institute of Oceanography (India)

    Sundaresh; Gaur, A.S.; Gudigar, P.; Tripati, S.; Vora, K.H.; Bandodkar, S.N.

    During marine archaeological explorations since 1983, off Dwarka, a large number of stone anchors were discovered and dated to 1400 BC, comparing with anchors found in Mediterranean waters. In recent archaeological explorations off Dwarka, Bet...

  6. Susceptibility to anchoring effects: How openness-to-experience influences responses to anchoring cues

    OpenAIRE

    Todd McElroy; Keith Dowd

    2007-01-01

    Previous research on anchoring has shown this heuristic to be a very robust psychological phenomenon ubiquitous across many domains of human judgment and decision-making. Despite the prevalence of anchoring effects, researchers have only recently begun to investigate the underlying factors responsible for how and in what ways a person is susceptible to them. This paper examines how one such factor, the Big-Five personality trait of openness-to-experience, influences the effect of previously p...

  7. 公路高边坡预应力锚索施工技术分析%Analysis of Construction Technology of the Prestressed Anchor Cable of High Slope of the Highway

    Institute of Scientific and Technical Information of China (English)

    龙伟

    2014-01-01

    在公路高边坡施工过程中,预应力锚索施工技术是当前很好的一种防滑施工措施。通过采用这种施工技术,能够增强工程主体的锚固强度,提高岩体的稳定性。在预应力锚索技术施工过程中,能够有效满足人们对于公路建造的高要求。%In the construction process of the high slope of the highway, the construction technology of priestesses anchor ca- ble is a kind of good anti-skid construction measures currently. By using this construction technology, builders can enhance the anchoring strength of the main body of project and imp- rove the stability of rock mass. In the construction process of the priestesses anchor cable technology can effectively meet people’s high requirements on the highway construction.

  8. Career Paths, Images and Anchors: A Study with Brazilian Professionals

    Science.gov (United States)

    Kilimnik, Zelia Miranda; de Oliveira, Luiz Claudio Vieira; Sant'anna, Anderson De Souza; Barros, Delba Teixeira Rodrigues

    2011-01-01

    This article analyses career anchors changes associated to images and professionals trajectories. Its main question: Do anchors careers change through time? We conducted twelve interviews involving professionals from the Administration Area, applying Schein's Career Anchors Inventory (1993). We did the same two years later. In both of them, the…

  9. Students' Anchoring Predisposition: An Illustration from Spring Training Baseball

    Science.gov (United States)

    Mohrweis, Lawrence C.

    2014-01-01

    The anchoring tendency results when decision makers anchor on initial values and then make final assessments that are adjusted insufficiently away from the initial values. The professional literature recognizes that auditors often risk falling into the judgment trap of anchoring and adjusting (Ranzilla et al., 2011). Students may also be unaware…

  10. Hypomorphic mutations in PGAP2, encoding a GPI-anchor-remodeling protein, cause autosomal-recessive intellectual disability

    DEFF Research Database (Denmark)

    Hansen, Lars; Tawamie, Hasan; Murakami, Yoshiko;

    2013-01-01

    PGAP2 encodes a protein involved in remodeling the glycosylphosphatidylinositol (GPI) anchor in the Golgi apparatus. After synthesis in the endoplasmic reticulum (ER), GPI anchors are transferred to the proteins and are remodeled while transported through the Golgi to the cell membrane. Germline...... mutations in six genes (PIGA, PIGL, PIGM, PIGV, PIGN, and PIGO) in the ER-located part of the GPI-anchor-biosynthesis pathway have been reported, and all are associated with phenotypes extending from malformation and lethality to severe intellectual disability, epilepsy, minor dysmorphisms, and elevated...... alkaline phosphatase (ALP). We performed autozygosity mapping and ultra-deep sequencing followed by stringent filtering and identified two homozygous PGAP2 alterations, p.Tyr99Cys and p.Arg177Pro, in seven offspring with nonspecific autosomal-recessive intellectual disability from two consanguineous...

  11. Bearing Capacity Analyses for the Great Belt East Bridge Anchor Blocks

    DEFF Research Database (Denmark)

    Sørensen, Carsten Steen; Clausen, Carl J. Frimann; Andersen, Henrik

    1993-01-01

    This paper presents a comparison between different methods of bearing capacity analyses: Upper Bound Method. Limit Equilibrium Analysis and Finite Element Analysis. For the Great Belt East Bridge anchor blocks it was concluded that these methods of calculation agree within 5%. However, for cases...... where the bearing capacity is dominated by frictional materials, much higher differences should be expected....

  12. Influence of ground parameters on the dynamic responses of anchored bedding rock slope

    Science.gov (United States)

    Yan, Zhi-xin; Gao, Le; Peng, Ningbo; Gao, Gang

    2013-10-01

    To research the influence of ground parameters on the dynamic responses of anchored bedding rock slope, a dynamic numerical simulation model of bedding rock slope with bolts was established using FLAC3D. The alteration of dynamic response with displacements and accelerations at monitoring points along the slope surface was set as analysis basis. The effects on dynamic responses of slope with different ground parameters, such as waves, frequencies and amplitudes were analyzed. It demonstrated great help for the dynamic stability analysis and slope design when it is supported with anchor under earthquake.

  13. Comparison of zero-profile anchored spacer versus plate-cage construct in treatment of cervical spondylosis with regard to clinical outcomes and incidence of major complications: a meta-analysis

    Directory of Open Access Journals (Sweden)

    Liu WJ

    2015-09-01

    Full Text Available Weijun Liu,1,* Ling Hu,2,* Junwen Wang,1 Ming Liu,1 Xiaomei Wang3 1Department of Orthopedics, Pu Ai Hospital, Affiliated to Tongji Medical College, Huazhong University of Science and Technology, 2Department of Anesthesiology, Tianyou Hospital, Affiliated to Wuhan University of Science and Technology, 3Department of Biological Science and Technology, Wuhan Bioengineering Institute, Wuhan, People’s Republic of China *These authors contributed equally to this work Purpose: Meta-analysis was conducted to evaluate whether zero-profile anchored spacer (Zero-P could reduce complication rates, while maintaining similar clinical outcomes compared to plate-cage construct (PCC in the treatment of cervical spondylosis. Methods: All prospective and retrospective comparative studies published up to May 2015 that compared the clinical outcomes of Zero-P versus PCC in the treatment of cervical spondylosis were acquired by a comprehensive search in PubMed and EMBASE. Exclusion criteria were non-English studies, noncomparative studies, hybrid surgeries, revision surgeries, and surgeries with less than a 12-month follow-up period. The main end points including Japanese Orthopedic Association (JOA and Neck Disability Index (NDI scores, cervical lordosis, fusion rate, subsidence, and dysphagia were analyzed. All studies were analyzed with the RevMan 5.2.0 software. Publication biases of main results were examined using Stata 12.0. Results: A total of 12 studies were included in the meta-analysis. No statistical difference was observed with regard to preoperative or postoperative JOA and NDI scores, cervical lordosis, and fusion rate. The Zero-P group had a higher subsidence rate than the PCC group (P<0.05, risk difference =0.13, 95% confidence interval [CI] 0.00–0.26. However, the Zero-P group had a significantly lower postoperative dysphagia rate than the PCC group within the first 2 weeks (P<0.05, odds ratio [OR] =0.64, 95% CI 0.45–0.91, at the 6th month [P

  14. In Silico Analysis of Gene Expression Network Components Underlying Pigmentation Phenotypes in the Python Identified Evolutionarily Conserved Clusters of Transcription Factor Binding Sites

    Science.gov (United States)

    2016-01-01

    Color variation provides the opportunity to investigate the genetic basis of evolution and selection. Reptiles are less studied than mammals. Comparative genomics approaches allow for knowledge gained in one species to be leveraged for use in another species. We describe a comparative vertebrate analysis of conserved regulatory modules in pythons aimed at assessing bioinformatics evidence that transcription factors important in mammalian pigmentation phenotypes may also be important in python pigmentation phenotypes. We identified 23 python orthologs of mammalian genes associated with variation in coat color phenotypes for which we assessed the extent of pairwise protein sequence identity between pythons and mouse, dog, horse, cow, chicken, anole lizard, and garter snake. We next identified a set of melanocyte/pigment associated transcription factors (CREB, FOXD3, LEF-1, MITF, POU3F2, and USF-1) that exhibit relatively conserved sequence similarity within their DNA binding regions across species based on orthologous alignments across multiple species. Finally, we identified 27 evolutionarily conserved clusters of transcription factor binding sites within ~200-nucleotide intervals of the 1500-nucleotide upstream regions of AIM1, DCT, MC1R, MITF, MLANA, OA1, PMEL, RAB27A, and TYR from Python bivittatus. Our results provide insight into pigment phenotypes in pythons. PMID:27698666

  15. 钢锚梁式钢-混组合索塔锚固体系设计与分析%Design and Analysis of Steel-concrete Composite Anchorage Structure with Steel Anchor Beam

    Institute of Scientific and Technical Information of China (English)

    苗通; 孙蕊鑫

    2015-01-01

    A bridge is a twin towers and double cable plane prestressed concrete girder cable -stayed bridge with a span arrangement of (130 +300 +130)m,and the tower type is inverted Y and the Steel -concrete Composite anchorage structure with Steel Anchor Beam is used to anchorage the cable of end of the tower.Among this type anchorage system,the anchor boxes have been welded on both sides of the steel anchor beam,at the same time, using steel bracket to replace traditional concrete corbel structure.In this paper,the characteristics of this kind of anchor system has been introduced and the stress situation of this kind of anchor system has been analyzed u-sing the finite element method.The research conclusion can provide a reference for the design of this type of ca-ble pylon anchorage system.%某斜拉桥主桥是一座跨径布置为(130m +300m +130m)的双塔双索面预应力混凝土梁斜拉桥,索塔采用倒 Y 型,斜拉索在桥塔端采用新型空间索面钢锚梁式钢-混组合索塔锚固体系进行锚固。该型锚固体系将锚箱焊在钢锚梁两侧,同时采用钢牛腿替换传统的混凝土牛腿结构,提高了施工速度,改善了结构受力。介绍了该种锚固体系的特点,并采用有限元方法对改型索塔锚固体系的受力情况进行了分析,可为该类型索塔锚固体系设计提供参考。

  16. The role of voltage-gated calcium channels in neurotransmitter phenotype specification: Coexpression and functional analysis in Xenopus laevis.

    Science.gov (United States)

    Lewis, Brittany B; Miller, Lauren E; Herbst, Wendy A; Saha, Margaret S

    2014-08-01

    Calcium activity has been implicated in many neurodevelopmental events, including the specification of neurotransmitter phenotypes. Higher levels of calcium activity lead to an increased number of inhibitory neural phenotypes, whereas lower levels of calcium activity lead to excitatory neural phenotypes. Voltage-gated calcium channels (VGCCs) allow for rapid calcium entry and are expressed during early neural stages, making them likely regulators of activity-dependent neurotransmitter phenotype specification. To test this hypothesis, multiplex fluorescent in situ hybridization was used to characterize the coexpression of eight VGCC α1 subunits with the excitatory and inhibitory neural markers xVGlut1 and xVIAAT in Xenopus laevis embryos. VGCC coexpression was higher with xVGlut1 than xVIAAT, especially in the hindbrain, spinal cord, and cranial nerves. Calcium activity was also analyzed on a single-cell level, and spike frequency was correlated with the expression of VGCC α1 subunits in cell culture. Cells expressing Cav 2.1 and Cav 2.2 displayed increased calcium spiking compared with cells not expressing this marker. The VGCC antagonist diltiazem and agonist (-)BayK 8644 were used to manipulate calcium activity. Diltiazem exposure increased the number of glutamatergic cells and decreased the number of γ-aminobutyric acid (GABA)ergic cells, whereas (-)BayK 8644 exposure decreased the number of glutamatergic cells without having an effect on the number of GABAergic cells. Given that the expression and functional manipulation of VGCCs are correlated with neurotransmitter phenotype in some, but not all, experiments, VGCCs likely act in combination with a variety of other signaling factors to determine neuronal phenotype specification. PMID:24477801

  17. Research on Slippage Mechanism of Single Anchoring Device in Mine Small Diameter Pre-Stress Anchor%矿用小孔径预应力锚索单孔锚具滑脱机理研究

    Institute of Scientific and Technical Information of China (English)

    褚晓威; 鞠文君; 吴拥政

    2014-01-01

    According to the phenomena of the anchoring slippage and other unreliable anchoring occurred in the anchoring device of the an-chor in underground mine,in order to get the slippage causes of the anchoring device and to improve the anchoring reliability of the an-chor,the dynamics analysis,lab analysis method and other methods were applied to get the main factors of the anchor device slippage and the major materials of the anchors applied to the coal mine were preliminarily investigated.The analysis results showed that hardness differ-ence between the anchor and shim irrational,diameter error of the anchor too high,strength and hardness of the anchor too high,critical distance irrational and anchoring device quality poor would be main factors to influence the reliability of the anchoring.Therefore,an effec-tive reference index to reduce the slippage probability and to improve the reliability of the anchor should have hardness difference between the anchor and shim over HRC10,the anchor diameter error should not be over ±0. 400. 20 mm,the actual strength of the anchor should be lower than the tensile strength and aspace limited distance should be a shim exposed distance plus a retuned distance of the anchoring device.%针对煤矿井下锚索的锚具出现退锚等锚固不可靠的现象,为得到锚具退锚原因,提高锚索锚固可靠性,采用力学分析、试验分析等方法得出锚具退锚的主要因素,并初步调研了国内煤矿锚索的主要材料。分析结果表明锚索与夹片硬度差不合理、锚索直径误差偏大、锚索强度和硬度偏大、限位距离不合理和锚具质量差是影响锚固可靠性的主要因素。由此得出,降低退锚概率、提高锚索的可靠性的有效参考指标为锚索夹片硬度差大于HRC10,锚索直径误差不超过±0.400.20 mm,锚索实际强度低于其抗拉强度和限位距离等于夹片外露距离与锚具回缩距离的和。

  18. A STUDY ON LOAD CAPACITY OF HORIZONTAL AND INCLINED PLATE ANCHORS IN SANDY SOILS

    OpenAIRE

    BALESHWAR SINGH; BIRJUKUMAR MISTRI

    2011-01-01

    Foundations of structures which are subjected to uplift loading require anchoring systems to resist pullout loads. Such anchors can be broadly classified as gravity anchors, pile anchors and plate anchors. Plate anchors can be circular, square or strip in shape. The loading applied on plate anchors can be vertical, inclined or horizontal depending on the anchor orientation. In this study, various experimental, theoretical and numerical approaches for estimation of load capacity of horizontal ...

  19. Update History of This Database - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us ...The Rice Growth Monitoring for The Phenotypic Functional Analysis Update History of This Database Date Update...tion Download License Update History of This Database Site Policy | Contact Us Update...//www.gs.dna.affrc.go.jp/SY-1108/ ) is opened. Joomla SEF URLs by Artio About This Database Database Descrip

  20. SNP discovery and chromosome anchoring provide the first physically-anchored hexaploid oat map and reveal synteny with model species.

    Directory of Open Access Journals (Sweden)

    Rebekah E Oliver

    Full Text Available A physically anchored consensus map is foundational to modern genomics research; however, construction of such a map in oat (Avena sativa L., 2n = 6x = 42 has been hindered by the size and complexity of the genome, the scarcity of robust molecular markers, and the lack of aneuploid stocks. Resources developed in this study include a modified SNP discovery method for complex genomes, a diverse set of oat SNP markers, and a novel chromosome-deficient SNP anchoring strategy. These resources were applied to build the first complete, physically-anchored consensus map of hexaploid oat. Approximately 11,000 high-confidence in silico SNPs were discovered based on nine million inter-varietal sequence reads of genomic and cDNA origin. GoldenGate genotyping of 3,072 SNP assays yielded 1,311 robust markers, of which 985 were mapped in 390 recombinant-inbred lines from six bi-parental mapping populations ranging in size from 49 to 97 progeny. The consensus map included 985 SNPs and 68 previously-published markers, resolving 21 linkage groups with a total map distance of 1,838.8 cM. Consensus linkage groups were assigned to 21 chromosomes using SNP deletion analysis of chromosome-deficient monosomic hybrid stocks. Alignments with sequenced genomes of rice and Brachypodium provide evidence for extensive conservation of genomic regions, and renewed encouragement for orthology-based genomic discovery in this important hexaploid species. These results also provide a framework for high-resolution genetic analysis in oat, and a model for marker development and map construction in other species with complex genomes and limited resources.

  1. Analysis of HRCT Phenotypes of Chronic Obstructive Pulmonary Disease%COPD的HRCT表现型分型及其分析

    Institute of Scientific and Technical Information of China (English)

    方思月; 王剑

    2014-01-01

    Objective To explore the value of HRCT phenotypes of chronic obstructive pulmonary disease. Methods A total of 127 patients with stable COPD (FEV1<80%) were examined by chest High-resolution CT. Emphysematous changes and bronchial wall thickening (BWT) were evaluated visually, and COPD patients were classified into three phenotypes:absence of emphysema, with little emphysema with or without BWT (A phenotype), emphysema without BWT (E phenotype) and emphysema with BWT phenotype (M phenotype). The clinical characteristics were compared among the three phenotypes. Results The A phenotype showed a higher prevalence of those who had never smoked and patients with wheezing both on exertion and at rest, higher values of BMI and diffusing capacity for carbon mononide and milder lung hyperinflation. The M phenotype showed a higher prevalence of patients complaining of a large amount of sputum, productive cough and wheezing, and greater reversibility of airflow limitation responsive compared with the E phenotype. Conclusion These findings suggest that the morphological phenotypes of COPD show several clinical characteristics and different lung function characteristic.%目的:探讨HRCT对COPD进行表现型分型的价值。方法对127名处于稳定期的COPD患者(FEV1<80%)使用HRCT进行胸部扫描,分析其肺气肿和支气管管壁增厚的程度,以此将患者分为3个表型:存在轻微肺气肿或无肺气肿,伴或不伴支气管管壁增厚(A表型);存在肺气肿但不伴有支气管管壁增厚(E表型);有较重的肺气肿并伴有较重的支气管管壁增厚(M表型),分析各表型相应的临床表现和肺功能特征。结果 A表型中不吸烟的人数、活动及静止时均出现哮喘的发病率、体质指数及CO弥散率最高,肺功能指标显示肺通气障碍较轻;M表型则有大量咳痰、排痰性咳嗽及哮喘,可逆性气流受限较E表型严重。结论以HRCT对COPD进行形态学表现型分型,可

  2. Analysis of mammalian gene function through broad-based phenotypic screens across a consortium of mouse clinics

    DEFF Research Database (Denmark)

    de Angelis, Martin Hrabě; Nicholson, George; Selloum, Mohammed;

    2015-01-01

    The function of the majority of genes in the mouse and human genomes remains unknown. The mouse embryonic stem cell knockout resource provides a basis for the characterization of relationships between genes and phenotypes. The EUMODIC consortium developed and validated robust methodologies for th...

  3. Geodesic defect anchoring on nematic shells.

    Science.gov (United States)

    Mirantsev, Leonid V; Sonnet, André M; Virga, Epifanio G

    2012-08-01

    Nematic shells are colloidal particles coated with nematic liquid crystal molecules, which may freely glide and rotate on the colloid's surface while keeping their long axis on the local tangent plane. Molecular dynamics simulations on a nanoscopic spherical shell indicate that under appropriate adhesion conditions for the molecules on the equator, the equilibrium nematic texture exhibits at each pole a pair of +1/2 defects so close to one another to be treated as one +1 defect. Spirals connect the polar defects, though the continuum limit of the interaction potential would not feature any elastic anisotropy. A molecular averaging justifies an anchoring defect energy that feels the geodesics emanating from the defect. All our observations are explained by such a geodesic anchoring, which vanishes on flat manifolds. PMID:23005713

  4. Composite materials formed with anchored nanostructures

    Energy Technology Data Exchange (ETDEWEB)

    Seals, Roland D; Menchhofer, Paul A; Howe, Jane Y; Wang, Wei

    2015-03-10

    A method of forming nano-structure composite materials that have a binder material and a nanostructure fiber material is described. A precursor material may be formed using a mixture of at least one metal powder and anchored nanostructure materials. The metal powder mixture may be (a) Ni powder and (b) NiAl powder. The anchored nanostructure materials may comprise (i) NiAl powder as a support material and (ii) carbon nanotubes attached to nanoparticles adjacent to a surface of the support material. The process of forming nano-structure composite materials typically involves sintering the mixture under vacuum in a die. When Ni and NiAl are used in the metal powder mixture Ni.sub.3Al may form as the binder material after sintering. The mixture is sintered until it consolidates to form the nano-structure composite material.

  5. Vertical and lateral capacity of screw anchor piles

    Energy Technology Data Exchange (ETDEWEB)

    Law, D.J.; Tweedie, R.W.; Harris, M.C. [Thurber Engineering Ltd., Edmonton, AB (Canada); Niedermaier, J. [Alberta Anchor Inc., Calgary, AB (Canada)

    1996-09-01

    Test programs were conducted to investigate the deformation behaviour of screw anchors during loading. Screw anchors are used in foundation applications for transmission towers and retaining walls, as well as for foundation elements for buildings, pipe racks, storage tanks and equipment. Screw anchor piles were installed at a site near Fort Saskatchewan, at a site underlain by typical stiff glacial soils. Single and multi-helix screw anchors with helix diameters up to 381 mm were tested in compression and tension. Lateral load tests were conducted on screw anchors with shaft diameters ranging from 114 mm to 273 mm. Results from the study showed that vertical and horizontal loads can be carried by screw anchor piles that are comparable with those achieved with driven steel piles, but screw anchors are easier to install, and can be more cost effective in some cases. 4 refs., 3 tabs., 4 figs.

  6. Anchoring properties of substrate with a grating surface

    Institute of Scientific and Technical Information of China (English)

    Ye Wen-Jiang; Xing Hong-Yu; Yang Guo-Chen

    2007-01-01

    The anchoring properties of substrate with a grating surface are investigated analytically. The alignment of nematic liquid crystal (NLC) in a grating surface originates from two mechanisms, thus the anchoring energy consists of two parts. One originates from the interaction potential between NLC molecules and the molecules on the substrate surface,and the other stems from the increased elastic strain energy. Based on the two mechanisms, the expression of anchoring energy per unit area of a projected plane of this grating surface is deduced and called the equivalent anchoring energy formula. Both the strength and the easy direction of equivalent anchoring energy are a function of the geometrical parameters (amplitude and pitch) of a grating surface. By using this formula, the grating surface can be replaced by its projected plane and its anchoring properties can be described by the equivalent anchoring energy formula.

  7. Anchoring in a novel bimanual coordination pattern.

    Science.gov (United States)

    Maslovat, Dana; Lam, Melanie Y; Brunke, Kirstin M; Chua, Romeo; Franks, Ian M

    2009-02-01

    Anchoring in cyclical movements has been defined as regions of reduced spatial or temporal variability [Beek, P. J. (1989). Juggling dynamics. PhD thesis. Amsterdam: Free University Press] that are typically found at movement reversal points. For in-phase and anti-phase movements, synchronizing reversal points with a metronome pulse has resulted in decreased anchor point variability and increased pattern stability [Byblow, W. D., Carson, R. G., & Goodman, D. (1994). Expressions of asymmetries and anchoring in bimanual coordination. Human Movement Science, 13, 3-28; Fink, P. W., Foo, P., Jirsa, V. K., & Kelso, J. A. S. (2000). Local and global stabilization of coordination by sensory information. Experimental Brain Research, 134, 9-20]. The present experiment examined anchoring during acquisition, retention, and transfer of a 90 degrees phase-offset continuous bimanual coordination pattern (whereby the right limb lags the left limb by one quarter cycle), involving horizontal flexion about the elbow. Three metronome synchronization strategies were imposed: participants either synchronized maximal flexion of the right arm (i.e., single metronome), both flexion and extension of the right arm (i.e., double metronome within-limb), or flexion of each arm (i.e., double metronome between-limb) to an auditory metronome. In contrast to simpler in-phase and anti-phase movements, synchronization of additional reversal points to the metronome did not reduce reversal point variability or increase pattern stability. Furthermore, practicing under different metronome synchronization strategies did not appear to have a significant effect on the rate of acquisition of the pattern. PMID:18842313

  8. Anchoring Heuristic and the Equity Premium Puzzle

    OpenAIRE

    Siddiqi, Hammad

    2015-01-01

    What happens when the anchoring and adjustment heuristic of Tversky and Kahneman (1974) is incorporated in the standard consumption-based capital asset pricing model (CCAPM)? The surprising finding is that it not only resolves the high equity-premium and low risk-free rate puzzles with a low risk-aversion coefficient, but also provides a unified framework for understanding countercyclical equity-premium, excess volatility, size, value, and momentum effects, and abnormal returns and volatiliti...

  9. Anchor Toolkit - a secure mobile agent system

    OpenAIRE

    Mudumbai, Srilekha S.; Johnston, William; Essiari, Abdelilah

    2008-01-01

    Mobile agent technology facilitates intelligent operation in software systems with less human interaction. Major challenge to deployment of mobile agents include secure transmission of agents and preventing unauthorized access to resources between interacting systems, as either hosts, or agents, or both can act maliciously. The Anchor toolkit, designed by LBNL, handles the transmission and secure management of mobile agents in a heterogeneous distributed computing environment. It provide...

  10. New Insights into Genotype-phenotype Correlations in Chinese Facioscapulohumeral Muscular Dystrophy: A Retrospective Analysis of 178 Patients

    Institute of Scientific and Technical Information of China (English)

    Feng Lin; Zhi-Qiang Wang; Min-Ting Lin; Shen-Xing Murong; Ning Wang

    2015-01-01

    Background:Facioscapulohumeral muscular dystrophy (FSHD),a common autosomal dominant muscular disorder,is caused by contraction of the D4Z4 repeats on 4q35.The complicated genotype-phenotype correlation among different ethnic population remains a controversial subject.We aimed to refine this correlation in order to provide new information for genetic counseling.Methods:Here,a cohort of 136 Chinese families including 178 affected individuals and 137 unaffected members were investigated.Genetic analyses were performed using the pl3E-11,4qA and 4qB probes after pulsed field gel electrophoresis separation and southern blotting.A 10-grade FSHD clinical severity scale was adopted for clinical assessment.The genotype-phenotype correlation was established by linear regression analyses.Results:We observed a roughly inversed correlation between the short EcoRI fragment size and age-corrected clinical severity score in 154 symptomatic patients (P < 0.05).Compared to male patients,a significant higher proportion of females in both asymptomatic carriers and severe patients showed larger variation in the size of short EcoRI fragment.A high incidence (19/42,45.2%) of asymptomatic (or minimally affected) carriers was found in familial members.Conclusions:Although the number of D4Z4 repeats is known as one of the critical influences on genotype-phenotype correlation,a majority of phenotypic spectrum was still incompatible with their heterozygous contraction of the D4Z4 repeat,especial in female cases.Our results suggest that there are multi-factors synergistically modulating the phenotypic expression.

  11. Phenotype microarray analysis of Escherichia coli K-12 mutants with deletions of all two-component systems.

    Science.gov (United States)

    Zhou, Lu; Lei, Xiang-He; Bochner, Barry R; Wanner, Barry L

    2003-08-01

    Two-component systems are the most common mechanism of transmembrane signal transduction in bacteria. A typical system consists of a histidine kinase and a partner response regulator. The histidine kinase senses an environmental signal, which it transmits to its partner response regulator via a series of autophosphorylation, phosphotransfer, and dephosphorylation reactions. Much work has been done on particular systems, including several systems with regulatory roles in cellular physiology, communication, development, and, in the case of bacterial pathogens, the expression of genes important for virulence. We used two methods to investigate two-component regulatory systems in Escherichia coli K-12. First, we systematically constructed mutants with deletions of all two-component systems by using a now-standard technique of gene disruption (K. A. Datsenko and B. L. Wanner, Proc. Natl. Acad. Sci. USA 97:6640-6645, 2000). We then analyzed these deletion mutants with a new technology called Phenotype MicroArrays, which permits assays of nearly 2,000 growth phenotypes simultaneously. In this study we tested 100 mutants, including mutants with individual deletions of all two-component systems and several related genes, including creBC-regulated genes (cbrA and cbrBC), phoBR-regulated genes (phoA, phoH, phnCDEFGHIJKLMNOP, psiE, and ugpBAECQ), csgD, luxS, and rpoS. The results of this battery of nearly 200,000 tests provided a wealth of new information concerning many of these systems. Of 37 different two-component mutants, 22 showed altered phenotypes. Many phenotypes were expected, and several new phenotypes were also revealed. The results are discussed in terms of the biological roles and other information concerning these systems, including DNA microarray data for a large number of the same mutants. Other mutational effects are also discussed. PMID:12897016

  12. Reliability analysis and demonstration of composite soil nailing retaining system enhanced with prestressed anchor%加锚复合土钉支护体系可靠度分析与实证

    Institute of Scientific and Technical Information of China (English)

    王辉; 杨向前; 郜新军

    2016-01-01

    To analyze and demonstrate composite retaining system enhanced with soil nails and pres-tressed anchors, some researches were carried out. In the analysis, a new idea based on reliability principle is presented. Firstly, considering the reinforcement mechanism of soil nailing, external stability of composite retaining system was analyzed based on the assumption of the circular-arc-shaped slip surface. Secondly, it was assumed that there was a double-line-shaped slip surface in in-ternal stability study. Lastly, combined with an engineering example, the method of two-order-mo-ment was adopted to analyze the limit state functions of external and internal stability models accord-ing to the recommended values of reliability index. The study indicates that the reliability index is suitable used to analyze the stability of composite retaining system, which considers the variability and uncertainty of soil compared with the conventional limit equilibrium theory;that modified doub-le-line-shaped slip surface is simpler and more reasonable for the analysis of internal stability of com-posite retaining system, because it considers the mechanical characteristic of soil nailed wall, which is tensioned in the upper part and sheared in the lower part. The results can provide theoretical foundations and calculation references for engineering design.%为对加锚复合土钉支护体系的可靠度进行分析与论证,在分析可靠性原理的基础上,从土钉加固机理出发,假定滑移面为圆弧线,对复合支护体系的外部稳定性进行分析;假定滑移面为改进的双折线,对复合支护体系的内部稳定性进行分析;结合工程实例,通过二阶距法对内外部的极限状态功能函数进行可靠度分析。分析与实证结果表明:将可靠度指标用于预应力锚杆复合土钉支护体系的稳定性分析,可以考虑土体的变异性和不确定性,克服了传统的极限平衡理论的弊端;改进的

  13. Test Score Equating Using a Mini-Version Anchor and a Midi Anchor: A Case Study Using SAT[R] Data

    Science.gov (United States)

    Liu, Jinghua; Sinharay, Sandip; Holland, Paul W.; Curley, Edward; Feigenbaum, Miriam

    2011-01-01

    This study explores an anchor that is different from the traditional miniature anchor in test score equating. In contrast to a traditional "mini" anchor that has the same spread of item difficulties as the tests to be equated, the studied anchor, referred to as a "midi" anchor (Sinharay & Holland), has a smaller spread of item difficulties than…

  14. Anchored design of protein-protein interfaces.

    Directory of Open Access Journals (Sweden)

    Steven M Lewis

    Full Text Available BACKGROUND: Few existing protein-protein interface design methods allow for extensive backbone rearrangements during the design process. There is also a dichotomy between redesign methods, which take advantage of the native interface, and de novo methods, which produce novel binders. METHODOLOGY: Here, we propose a new method for designing novel protein reagents that combines advantages of redesign and de novo methods and allows for extensive backbone motion. This method requires a bound structure of a target and one of its natural binding partners. A key interaction in this interface, the anchor, is computationally grafted out of the partner and into a surface loop on the design scaffold. The design scaffold's surface is then redesigned with backbone flexibility to create a new binding partner for the target. Careful choice of a scaffold will bring experimentally desirable characteristics into the new complex. The use of an anchor both expedites the design process and ensures that binding proceeds against a known location on the target. The use of surface loops on the scaffold allows for flexible-backbone redesign to properly search conformational space. CONCLUSIONS AND SIGNIFICANCE: This protocol was implemented within the Rosetta3 software suite. To demonstrate and evaluate this protocol, we have developed a benchmarking set of structures from the PDB with loop-mediated interfaces. This protocol can recover the correct loop-mediated interface in 15 out of 16 tested structures, using only a single residue as an anchor.

  15. Scanning electron microscopy as a tool for the analysis of colony architecture produced by phenotypic switching of a human pathogenic yeast Candida tropicalis

    International Nuclear Information System (INIS)

    Candida tropicalis has been identified as one of the most prevalent pathogenic yeast species of the Candida-non-albicans group. Phenotypic switching is a biological phenomenon related to the occurrence of spontaneous emergence of colonies with different morphologies that provides variability within colonizing populations in order to adapt to different environments. Currently, studies of the microstructure of switching variant colonies are not subject of extensive research. SEM analysis was used to verify the architecture of whole Candida colonies. The strain 49/07 exhibited a hemispherical shape character, while the strain 335/07 showed a volcano shape with mycelated-edge colony. The ring switch variant is characterized by a highly wrinkled centre and an irregular periphery. The rough phenotype exhibited a three-dimensional architecture and was characterized by the presence of deep central and peripheral depressions areas. The ultrastructural analysis also allowed the observation of the arrangement of individual cells within the colonies. The whole smooth colony consisted entirely of yeast cells. Differently, aerial filaments were found all around the colony periphery of the volcano shape colony. For this colony type the mycelated-edge consisted mainly of hyphae, although yeast cells are also seen. The ring and rough colonies phenotypes comprised mainly yeast cells with the presence of extracellular material connecting neighbouring cells. This study has shown that SEM can be used effectively to examine the microarchitecture of colonies morphotypes of the yeast C. tropicalis and further our understanding of switching event in this pathogen.

  16. An Analysis on the Effects of Vehicle Anchoring on Aerodynamic Measurement in Wind Tunnel Test%风洞试验中车辆锚定方式对气动力测量的影响分析

    Institute of Scientific and Technical Information of China (English)

    陈力; 刘晓晖; 庞加斌; 杨志刚

    2014-01-01

    Aerodynamic force measurement of a vehicle with two different ways of anchoring is conducted in the first full scale aerodynamic / acoustic wind tunnel in China. The results indicate that with traditional floating mode, the rear end of vehicle rises at high wind speed, leading to a higher drag coefficient than that with fixed mode, and the maximum difference reaches 0. 006, while the lift coefficient with floating mode is smaller than that with fixed mode when wind speed is higher than 100 km/h with a maximum difference up to 0. 007 . So the effects of vehicle anchoring mode should be taken into consideration in aerodynamic measurement, and it is recommended to properly select the way of vehicle anchoring according to the objective and condition of test to ensure the accuracy of measurement.%利用国内首个整车气动声学风洞对某车辆在两种锚定方式下的气动力进行测量。结果表明,传统的浮动模式在高风速时车尾上翘,且上翘高度随着风速增加而增大。导致气动阻力系数比固定模式大,最大差值0.006。风速高于100km/h时气动升力系数比固定模式小,最大差值0.007。因此,整车气动力测量时应考虑锚定方式的影响,根据试验目的和条件合理选择车辆锚定方式,以保证测试精度。

  17. Capturing phenotypes for precision medicine.

    Science.gov (United States)

    Robinson, Peter N; Mungall, Christopher J; Haendel, Melissa

    2015-10-01

    Deep phenotyping followed by integrated computational analysis of genotype and phenotype is becoming ever more important for many areas of genomic diagnostics and translational research. The overwhelming majority of clinical descriptions in the medical literature are available only as natural language text, meaning that searching, analysis, and integration of medically relevant information in databases such as PubMed is challenging. The new journal Cold Spring Harbor Molecular Case Studies will require authors to select Human Phenotype Ontology terms for research papers that will be displayed alongside the manuscript, thereby providing a foundation for ontology-based indexing and searching of articles that contain descriptions of phenotypic abnormalities-an important step toward improving the ability of researchers and clinicians to get biomedical information that is critical for clinical care or translational research. PMID:27148566

  18. Structure Damage Analysis of Photoelectric Composite Cable under Impaction by Admiral Anchors on Non-Rigid Bottom%非刚性底质上海军锚对光电复合缆撞击损伤分析

    Institute of Scientific and Technical Information of China (English)

    王力平; 罗晓兰; 高强; 段梦兰; 徐健; 脱浩虎

    2016-01-01

    The ship’s anchor impact is easy to make submarine cable breakage and damage.It is very meaningful to carry out the research on the impact damage of submarine cable structure, which is very important for ensuring the safety of communication,power and production.Aiming at admiral anchor on the non-rigid bottom,a finite element model of drop anchor impacting photo-electric composite cable is created,and the plastic strain and sectional deformation of photoelectric composite cable are analyzed and calculated when admiral anchor dropped the cable.To find the strain and deformation trend of photoelectric composite cable structure of each layer are basic con-sistency,so the damage the internal structure from outer injury can be determined.Meanwhile,the comparative calculation and test results show that the light unit is more likely to suffer extrusion deformation than the electric unit.When the cross-sectional deformation of the photoelectric com-posite cable reaches 9%,the light unit of cable is damaged.%船锚撞击容易使海底电缆断裂、破损,为此,开展海底电缆结构的撞击损伤研究,对保障海底通讯通电生产安全具有非常重要的意义。针对非刚性底及质海军锚,建立落锚冲击光电复合缆的有限元计算模型,通过对落锚冲击时光电复合缆结构的等效塑性应变和截面变形量的计算分析,发现光电缆各层结构的应变和变形趋势基本一致,从而可以从外层铠装的损伤来判断内部结构的损伤情况。计算结果对比试验结果表明,光单元比电单元更容易遭受挤压变形,当光电缆的截面变形量达到9%,电缆中光单元受损。

  19. Robotic Ankle for Omnidirectional Rock Anchors

    Science.gov (United States)

    Parness, Aaron; Frost, Matthew; Thatte, Nitish

    2013-01-01

    Future robotic exploration of near-Earth asteroids and the vertical and inverted rock walls of lava caves and cliff faces on Mars and other planetary bodies would require a method of gripping their rocky surfaces to allow mobility without gravitational assistance. In order to successfully navigate this terrain and drill for samples, the grippers must be able to produce anchoring forces in excess of 100 N. Additionally, the grippers must be able to support the inertial forces of a moving robot, as well gravitational forces for demonstrations on Earth. One possible solution would be to use microspine arrays to anchor to rock surfaces and provide the necessary load-bearing abilities for robotic exploration of asteroids. Microspine arrays comprise dozens of small steel hooks supported on individual suspensions. When these arrays are dragged along a rock surface, the steel hooks engage with asperities and holes on the surface. The suspensions allow for individual hooks to engage with asperities while the remaining hooks continue to drag along the surface. This ensures that the maximum possible number of hooks engage with the surface, thereby increasing the load-bearing abilities of the gripper. Using the microspine array grippers described above as the end-effectors of a robot would allow it to traverse terrain previously unreachable by traditional wheeled robots. Furthermore, microspine-gripping robots that can perch on cliffs or rocky walls could enable a new class of persistent surveillance devices for military applications. In order to interface these microspine grippers with a legged robot, an ankle is needed that can robotically actuate the gripper, as well as allow it to conform to the large-scale irregularities in the rock. The anchor serves three main purposes: deploy and release the anchor, conform to roughness or misalignment with the surface, and cancel out any moments about the anchor that could cause unintentional detachment. The ankle design contains a

  20. Fixation of a human rib by an intramedullary telescoping splint anchored by bone cement.

    Science.gov (United States)

    Liovic, Petar; Šutalo, Ilija D; Marasco, Silvana F

    2016-09-01

    A novel concept for rib fixation is presented that involves the use of a bioresorbable polymer intramedullary telescoping splint. Bone cement is used to anchor each end of the splint inside the medullary canal on each side of the fracture site. In this manner, rib fixation is achieved without fixation device protrusion from the rib, making the splint completely intramedullary. Finite element analysis is used to demonstrate that such a splint/cement composite can preserve rib fixation subjected to cough-intensity force loadings. Computational fluid dynamics and porcine rib experiments were used to study the anchor formation process required to complete the fixation. PMID:26733094

  1. Prediction of the pull-out strength of chemical anchors in natural stone

    Directory of Open Access Journals (Sweden)

    L. Contrafatto

    2014-07-01

    Full Text Available The applicability of some numerical models for the prediction of the failure mechanism and of the bearing capacity of post-installed threaded rods chemically anchored in basalt, sandstone and limestone is investigated, as well as the reliability of theoretical formulations conceived for concrete. The numerical predictions, performed by means of engineering structural analysis software and advanced numerical codes, are compared with the results of an experimental research related to chemical anchors in natural stone. The minimum embedment depth for such fastening system is identified.

  2. Differences regarding job satisfaction and job involvement of psychologists with different dominant career anchors

    Directory of Open Access Journals (Sweden)

    CL Bester

    2006-09-01

    Full Text Available In order to contribute to higher levels of job satisfaction, job involvement , and productivity, a match or fit should be established between the dominant career anchor associated with a specific occupation and that of the employee. A career anchor is an individual’s set of self-perceived talents, abilities, motives, needs and values that form the nucleus of one’s occupational self-concept. Psychologists have always been part of the service orientated careers and therefore one would expect that it is likely that their dominant career anchor would be service orientation. If this is the case, psychologists with service as their dominant career anchor are supposed to have greater job satisfaction and job involvement compared to those with different career anchors. However, according to literature, this assumption is not necessarily correct. The primary goals of the current study were to determine whether in fact service is the dominant career anchor of psychologists in the Free State and whether there are significant differences regarding job satisfaction and job involvement between psychologists with and without service as their dominant career anchor. A third goal was to determine whether psychologists with different dominant career anchors differ significantly from one another regarding job satisfaction and job involvement. Questionnaires measuring career orientations, job satisfaction and job involvement were sent to 165 of the 171 registered psychologists in the Free State region. Only 75 psychologists (45,5% responded which exceeded the traditional return rate of 20 to 30%. Due to the small sample of respondents, a nonparametric statistical test, namely the Mann Whitney U test was conducted to determine possible differences. An analysis of the data showed that 21 respondents had entrepreneurship as their dominant career orientation while 12 fell in the technical/functional, 12 in the challenging, 9 in the service and 8 in the autonomy

  3. Automatic Spectroscopic Data Categorization by Clustering Analysis (ASCLAN): A Data-Driven Approach for Distinguishing Discriminatory Metabolites for Phenotypic Subclasses.

    Science.gov (United States)

    Zou, Xin; Holmes, Elaine; Nicholson, Jeremy K; Loo, Ruey Leng

    2016-06-01

    We propose a novel data-driven approach aiming to reliably distinguish discriminatory metabolites from nondiscriminatory metabolites for a given spectroscopic data set containing two biological phenotypic subclasses. The automatic spectroscopic data categorization by clustering analysis (ASCLAN) algorithm aims to categorize spectral variables within a data set into three clusters corresponding to noise, nondiscriminatory and discriminatory metabolites regions. This is achieved by clustering each spectral variable based on the r(2) value representing the loading weight of each spectral variable as extracted from a orthogonal partial least-squares discriminant (OPLS-DA) model of the data set. The variables are ranked according to r(2) values and a series of principal component analysis (PCA) models are then built for subsets of these spectral data corresponding to ranges of r(2) values. The Q(2)X value for each PCA model is extracted. K-means clustering is then applied to the Q(2)X values to generate two clusters based on minimum Euclidean distance criterion. The cluster consisting of lower Q(2)X values is deemed devoid of metabolic information (noise), while the cluster consists of higher Q(2)X values is then further subclustered into two groups based on the r(2) values. We considered the cluster with high Q(2)X but low r(2) values as nondiscriminatory, while the cluster with high Q(2)X and r(2) values as discriminatory variables. The boundaries between these three clusters of spectral variables, on the basis of the r(2) values were considered as the cut off values for defining the noise, nondiscriminatory and discriminatory variables. We evaluated the ASCLAN algorithm using six simulated (1)H NMR spectroscopic data sets representing small, medium and large data sets (N = 50, 500, and 1000 samples per group, respectively), each with a reduced and full resolution set of variables (0.005 and 0.0005 ppm, respectively). ASCLAN correctly identified all discriminatory

  4. Comparative Proteome Analysis of the Tuberous Roots of Six Cassava (Manihot esculenta) Varieties Reveals Proteins Related to Phenotypic Traits.

    Science.gov (United States)

    Schmitz, Gabriela Justamante Händel; de Magalhães Andrade, Jonathan; Valle, Teresa Losada; Labate, Carlos Alberto; do Nascimento, João Roberto Oliveira

    2016-04-27

    Cassava (Manihot esculenta Crantz) is a staple food and an important source of starch, and the attributes of its tuberous root largely depend on the variety. The proteome of cassava has been investigated; however, to date, no study has focused on varieties that reveal the molecular basis of phenotypical characteristics. Therefore, we aimed to compare the proteome of the tuberous roots of six cassava varieties that differed in carbohydrates, carotenoids, and resistance to diseases, among other attributes. Two-dimensional gels showed 146 differential spots between the varieties, and the functional roles of some differential proteins were correlated to phenotypic characteristics of the varieties, such as the amount of carbohydrates or carotenoids and the resistance to biotic or abiotic stresses. The results obtained here highlight elements that might help to direct the improvement of new cultivars of cassava, which is an economically and socially relevant crop worldwide.

  5. Comparative Proteome Analysis of the Tuberous Roots of Six Cassava (Manihot esculenta) Varieties Reveals Proteins Related to Phenotypic Traits.

    Science.gov (United States)

    Schmitz, Gabriela Justamante Händel; de Magalhães Andrade, Jonathan; Valle, Teresa Losada; Labate, Carlos Alberto; do Nascimento, João Roberto Oliveira

    2016-04-27

    Cassava (Manihot esculenta Crantz) is a staple food and an important source of starch, and the attributes of its tuberous root largely depend on the variety. The proteome of cassava has been investigated; however, to date, no study has focused on varieties that reveal the molecular basis of phenotypical characteristics. Therefore, we aimed to compare the proteome of the tuberous roots of six cassava varieties that differed in carbohydrates, carotenoids, and resistance to diseases, among other attributes. Two-dimensional gels showed 146 differential spots between the varieties, and the functional roles of some differential proteins were correlated to phenotypic characteristics of the varieties, such as the amount of carbohydrates or carotenoids and the resistance to biotic or abiotic stresses. The results obtained here highlight elements that might help to direct the improvement of new cultivars of cassava, which is an economically and socially relevant crop worldwide. PMID:26982619

  6. Longitudinal analysis of the behavioral phenotype in a novel transgenic rat model of early stages of Alzheimer's disease

    OpenAIRE

    Galeano, Pablo; Martino Adami, Pamela V.; Do Carmo, Sonia; Blanco, Eduardo; Rotondaro, Cecilia; Capani, Francisco; Castaño, Eduardo M; Cuello, A. Claudio; Morelli, Laura

    2014-01-01

    Intraneuronal accumulation of amyloid β (iAβ) has been linked to mild cognitive impairment that may precede Alzheimer's disease (AD) onset. This neuropathological trait was recently mimicked in a novel animal model of AD, the hemizygous transgenic McGill-R-Thy1-APP (Tg(+/-)) rat. The characterization of the behavioral phenotypes in this animal model could provide a baseline of efficacy for earlier therapeutic interventions. The aim of the present study was to undertake a longitudinal study of...

  7. A Cladistic Analysis of Phenotypic Associations with Haplotypes Inferred from Restriction Endonuclease Mapping and DNA Sequence Data. III. Cladogram Estimation

    Science.gov (United States)

    Templeton, A. R.; Crandall, K. A.; Sing, C. F.

    1992-01-01

    We previously developed a cladistic approach to identify subsets of haplotypes defined by restriction endonuclease mapping or DNA sequencing that are associated with significant phenotypic deviations. Our approach was limited to segments of DNA in which little recombination occurs. In such cases, a cladogram can be constructed from the restriction site or sequence data that represents the evolutionary steps that interrelate the observed haplotypes. The cladogram is used to define a nested statistical design to identify mutational steps associated with significant phenotypic deviations. The central assumption behind this strategy is that any undetected mutation causing a phenotypic effect is embedded within the same evolutionary history that is represented by the cladogram. The power of this approach depends upon the confidence one has in the particular cladogram used to draw inferences. In this paper, we present a strategy for estimating the set of cladograms that are consistent with a particular sample of either restriction site or nucleotide sequence data and that includes the possibility of recombination. We first evaluate the limits of parsimony in constructing cladograms. Once these limits have been determined, we construct the set of parsimonious and nonparsimonious cladograms that is consistent with these limits. Our estimation procedure also identifies haplotypes that are candidates for being products of recombination. If recombination is extensive, our algorithm subdivides the DNA region into two or more subsections, each having little or no internal recombination. We apply this estimation procedure to three data sets to illustrate varying degrees of cladogram ambiguity and recombination. PMID:1385266

  8. Accuracy Analysis of a Multi-View Stereo Approach for Phenotyping of Tomato Plants at the Organ Level

    Directory of Open Access Journals (Sweden)

    Johann Christian Rose

    2015-04-01

    Full Text Available Accessing a plant’s 3D geometry has become of significant importance for phenotyping during the last few years. Close-up laser scanning is an established method to acquire 3D plant shapes in real time with high detail, but it is stationary and has high investment costs. 3D reconstruction from images using structure from motion (SfM and multi-view stereo (MVS is a flexible cost-effective method, but requires post-processing procedures. The aim of this study is to evaluate the potential measuring accuracy of an SfM- and MVS-based photogrammetric method for the task of organ-level plant phenotyping. For this, reference data are provided by a high-accuracy close-up laser scanner. Using both methods, point clouds of several tomato plants were reconstructed at six following days. The parameters leaf area, main stem height and convex hull of the complete plant were extracted from the 3D point clouds and compared to the reference data regarding accuracy and correlation. These parameters were chosen regarding the demands of current phenotyping scenarios. The study shows that the photogrammetric approach is highly suitable for the presented monitoring scenario, yielding high correlations to the reference measurements. This cost-effective 3D reconstruction method depicts an alternative to an expensive laser scanner in the studied scenarios with potential for automated procedures.

  9. Extensive transcriptome analysis correlates the plasticity of Entamoeba histolytica pathogenesis to rapid phenotype changes depending on the environment

    Science.gov (United States)

    Weber, Christian; Koutero, Mikael; Dillies, Marie-Agnes; Varet, Hugo; Lopez-Camarillo, Cesar; Coppée, Jean Yves; Hon, Chung-Chau; Guillén, Nancy

    2016-01-01

    Amoebiasis is a human infectious disease due to the amoeba parasite Entamoeba histolytica. The disease appears in only 20% of the infections. Diversity in phenotypes may occur within the same infectious strain in the gut; for instance, parasites can be commensal (in the intestinal lumen) or pathogenic (inside the tissue). The degree of pathogenesis of clinical isolates varies greatly. These findings raise the hypothesis that genetic derivation may account for amoebic diverse phenotypes. The main goal of this study was to analyse gene expression changes of a single virulent amoebic strain in different environmental contexts where it exhibit different degrees of virulence, namely isolated from humans and maintained through animal liver passages, in contact with the human colon and short or prolonged in vitro culture. The study reveals major transcriptome changes in virulent parasites upon contact with human colon explants, including genes related to sugar metabolism, cytoskeleton rearrangement, stress responses and DNA repair. Furthermore, in long-term cultured parasites, drastic changes in gene expression for proteins with functions for proteasome and tRNA activities were found. Globally we conclude that rapid changes in gene expression rather than genetic derivation can sustain the invasive phenotype of a single virulent isolate of E. histolytica. PMID:27767091

  10. Dynamic performance of concrete undercut anchors for Nuclear Power Plants

    Energy Technology Data Exchange (ETDEWEB)

    Mahrenholtz, Christoph, E-mail: christoph@mahrenholtz.net; Eligehausen, Rolf

    2013-12-15

    Graphical abstract: - Highlights: • Behavior of undercut anchors under dynamic actions simulating earthquakes. • First high frequency load and crack cycling tests on installed concrete anchors ever. • Comprehensive review of anchor qualification for Nuclear Power Plants. - Abstract: Post-installed anchors are widely used for structural and nonstructural connections to concrete. In many countries, concrete anchors used for Nuclear Power Plants have to be qualified to ensure reliable behavior even under extreme conditions. The tests required for qualification of concrete anchors are carried out at quasi-static loading rates well below the rates to be expected for dynamic actions deriving from earthquakes, airplane impacts or explosions. To investigate potentially beneficial effects of high loading rates and cycling frequencies, performance tests on installed undercut anchors were conducted. After introductory notes on anchor technology and a comprehensive literature review, this paper discusses the qualification of anchors for Nuclear Power Plants and the testing carried out to quantify experimentally the effects of dynamic actions on the load–displacement behavior of undercut anchors.

  11. 锚索支护在某水电站边坡中的FLAC3D数值分析%FLAC3D numerical analysis of the slope with the anchor rope supporting in a hydropower station

    Institute of Scientific and Technical Information of China (English)

    罗维; 刘鹏君; 姚建顺

    2016-01-01

    滇西某水电站导流洞在施工开挖工程中,边坡上部岩体会出现多条裂隙,对边坡的稳定性和施工安全性有着一定的影响。本文采用数值模拟对边坡进行了三维建模,植入锚杆加固措施对边坡的整体水平位移和塑形区进行了对比分析。通过数值模拟计算得出锚杆加固对改善边坡的变形有着良好的作用,对后期的施工有着一定的保障。%During the excavation of the diversion tunnel in DianXi, in the process of excavation, a number of cracks have been found in the upper slope rock mass, the stability and subsequent excavation of tunnels have been significantly adverse influenced. This paper adopts the numerical simulation was carried out on the slope with 3D modeling, With embedded anchor reinforcement measures, the overall level of slope displacement and plastic zone are analyzed in comparison. Calculated through the numerical simulation of anchor reinforcement to improve the slope deformation has a good effect, has a certain security on the late construction.

  12. Finding our way through phenotypes.

    Directory of Open Access Journals (Sweden)

    Andrew R Deans

    2015-01-01

    Full Text Available Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across many key fields in biology, including genomics, systems biology, development, medicine, evolution, ecology, and systematics. Here we survey the current phenomics landscape, including data resources and handling, and the progress that has been made to accurately capture relevant data descriptions for phenotypes. We present an example of the kind of integration across domains that computable phenotypes would enable, and we call upon the broader biology community, publishers, and relevant funding agencies to support efforts to surmount today's data barriers and facilitate analytical reproducibility.

  13. Endocytosis of glycosylphosphatidylinositol-anchored proteins

    Directory of Open Access Journals (Sweden)

    Sabharanjak Shefali

    2009-10-01

    Full Text Available Abstract Glycosylphosphatidylinositol-anchored proteins (GPI-APs represent an interesting amalgamation of the three basic kinds of cellular macromolecules viz. proteins, carbohydrates and lipids. An unusually hybrid moiety, the GPI-anchor is expressed in a diverse range of organisms from parasites to mammalian cells and serves to anchor a large number of functionally diverse proteins and has been the center of attention in scientific debate for some time now. Membrane organization of GPI-APs into laterally-organized cholesterol-sphingolipid ordered membrane domains or "rafts" and endocytosis of GPI-APs has been intensely debated. Inclusion into or exclusion from these membrane domains seems to be the critical factor in determining the endocytic mechanisms and intracellular destinations of GPI-APs. The intracellular signaling as well as endocytic trafficking of GPI-APs is critically dependent upon the cell surface organization of GPI-APs, and the associations with these lipid rafts play a vital role during these processes. The mechanism of endocytosis for GPI-APs may differ from other cellular endocytic pathways, such as those mediated by clathrin-coated pits (caveolae, and is necessary for unique biological functions. Numerous intracellular factors are involved in and regulate the endocytosis of GPI-APs, and these may be variably dependent on cell-type. The central focus of this article is to describe the significance of the endocytosis of GPI-APs on a multitude of biological processes, ranging from nutrient-uptake to more complex immune responses. Ultimately, a thorough elucidation of GPI-AP mediated signaling pathways and their regulatory elements will enhance our understanding of essential biological processes and benefit as components of disease intervention strategies.

  14. 分枝杆菌膜锚定表达载体的构建与亚细胞定位分析%The construction and sub-cellular localization analysis of novel mycobacterial membrane-anchored expression vector

    Institute of Scientific and Technical Information of China (English)

    王鑫; 范小勇; 马辉; 曲勍; 朱越雄

    2011-01-01

    Objective To construct mycobacterial membrane-anchored expression vector and to analyze expression level and sub-cellualr localization of exogenous target protein. Methods Based on the mycobacterial intracellular expression vector pMFA42 which contained a strong promoter of pfurAma mutant, the signal sequence of Mycobacterium tuberculosis(Mtb) 19×103 lipoprotein (19SS) was synthesized and was then cloned into the downstream of pfurAma mutant to generate the mycobacterial membrane-anchored expression vector pMFA42M. The coding gene of enhanced green fluorescent protein(EGFP) was amplified by PCR, and then sub-cloned into these two vectors described above to construct recombinant EGFP fused and membrane-anchored strains, respectively. The coding genes of Mtb immuno-dominant antigens Ag85A and its chimera Ag856A2 were then sub-cloned intothe membrane-anchored construct pMFA42MG to produce recombinant Mtb antigen EGFP fused-expression strains. After that, expression levels and sub-cellualr localization of exogenous target protein were further analyzed by Western blot and flow cytometry sorting(FCS), and the fluorescence intensities of recombinant EGFP- expressed strains were observed in vitro directly and after transfection of murine macrophage cell line RAW264.7. Results The novel mycobacterial membrane-anchored expression vector was constructed successfully by introduction of signal sequence of Mtb 19×103 lipoprotein. Using of EGFP as model antigen, exogenous target protein was demonstrated to be expressed with high level and could be anchored into cell membrane of recombinant mycobaterial strains. Conclusion A novel mycobacterial membrane-anchored expression vector was constructed successfully to research recombinant BCG and functions of mycobacterial membrane proteins, and the constructed EGFP-expressed recombinant strains could also be used to research cytophagy in cell model and mycobacterial colony and translocation in animal immunization as model indicator

  15. Adsorption phenomena and anchoring energy in nematic liquid crystals

    CERN Document Server

    Barbero, Giovanni

    2005-01-01

    Despite the large quantity of phenomenological information concerning the bulk properties of nematic phase liquid crystals, little is understood about the origin of the surface energy, particularly the surface, interfacial, and anchoring properties of liquid crystals that affect the performance of liquid crystal devices. Self-contained and unique, Adsorption Phenomena and Anchoring Energy in Nematic Liquid Crystals provides an account of new and established results spanning three decades of research into the problems of anchoring energy and adsorption phenomena in liquid crystals.The book contains a detailed discussion of the origin and possible sources of anchoring energy in nematic liquid crystals, emphasizing the dielectric contribution to the anchoring energy in particular. Beginning with fundamental surface and anchoring properties of liquid crystals and the definition of the nematic phase, the authors explain how selective ion adsorption, dielectric energy density, thickness dependence, and bias voltage...

  16. Anchor Toolkit - a secure mobile agent system

    Energy Technology Data Exchange (ETDEWEB)

    Mudumbai, Srilekha S.; Johnston, William; Essiari, Abdelilah

    1999-05-19

    Mobile agent technology facilitates intelligent operation insoftware systems with less human interaction. Major challenge todeployment of mobile agents include secure transmission of agents andpreventing unauthorized access to resources between interacting systems,as either hosts, or agents, or both can act maliciously. The Anchortoolkit, designed by LBNL, handles the transmission and secure managementof mobile agents in a heterogeneous distributed computing environment. Itprovides users with the option of incorporating their security managers.This paper concentrates on the architecture, features, access control anddeployment of Anchor toolkit. Application of this toolkit in a securedistributed CVS environment is discussed as a case study.

  17. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation

    Energy Technology Data Exchange (ETDEWEB)

    Templeton, A.R.; Crandall, K.A. (Washington Univ., St. Louis, MO (United States)); Sing, C.F. (Univ. of Michigan, Ann Arbor, MI (United States))

    The authors previously developed a cladistic approach to identify subsets of haplotypes defined by restriction endonuclease mapping or DNA sequencing that are associated with significant phenotypic deviations. The approach was limited to segments of DNA in which little recombination occurs. In such cases, a cladogram can be constructed from the restriction site or sequence data that represents the evolutionary steps that interrelate the observed haplotypes. The cladogram is used to define a nested statistical design to identify mutational steps associated with significant phenotypic deviations. The central assumption behind this strategy is that any undetected mutation causing a phenotypic effect is embedded within the same evolutionary history that is represented by the cladogram. The power of this approach depends upon the confidence one has in the particular cladogram used to draw inferences. In this paper, the authors present a strategy for estimating the set of cladograms that are consistent with a particular sample of either restriction site or nucleotide sequence data and that includes the possibility of recombination. They first evaluate the limits of parsimony in constructing cladograms. Once these limits have been determined, they construct the set of parsimonious and nonparsimonious cladograms that is consistent with these limits. The estimation procedure also identifies haplotypes that are candidates for being products of recombination. If recombination is extensive, the algorithm subdivides the DNA region into two or more subsections, each having little or no internal recombination. The authors apply this estimation procedure to three data sets to illustrate varying degrees of cladogram ambiguity and recombination. 26 refs., 9 figs., 1 tab.

  18. Temporal discrimination thresholds in adult-onset primary torsion dystonia: an analysis by task type and by dystonia phenotype.

    LENUS (Irish Health Repository)

    Bradley, D

    2012-01-01

    Adult-onset primary torsion dystonia (AOPTD) is an autosomal dominant disorder with markedly reduced penetrance. Sensory abnormalities are present in AOPTD and also in unaffected relatives, possibly indicating non-manifesting gene carriage (acting as an endophenotype). The temporal discrimination threshold (TDT) is the shortest time interval at which two stimuli are detected to be asynchronous. We aimed to compare the sensitivity and specificity of three different TDT tasks (visual, tactile and mixed\\/visual-tactile). We also aimed to examine the sensitivity of TDTs in different AOPTD phenotypes. To examine tasks, we tested TDT in 41 patients and 51 controls using visual (2 lights), tactile (non-painful electrical stimulation) and mixed (1 light, 1 electrical) stimuli. To investigate phenotypes, we examined 71 AOPTD patients (37 cervical dystonia, 14 writer\\'s cramp, 9 blepharospasm, 11 spasmodic dysphonia) and 8 musician\\'s dystonia patients. The upper limit of normal was defined as control mean +2.5 SD. In dystonia patients, the visual task detected abnormalities in 35\\/41 (85%), the tactile task in 35\\/41 (85%) and the mixed task in 26\\/41 (63%); the mixed task was less sensitive than the other two (p = 0.04). Specificity was 100% for the visual and tactile tasks. Abnormal TDTs were found in 36 of 37 (97.3%) cervical dystonia, 12 of 14 (85.7%) writer\\'s cramp, 8 of 9 (88.8%) blepharospasm, 10 of 11 (90.1%) spasmodic dysphonia patients and 5 of 8 (62.5%) musicians. The visual and tactile tasks were found to be more sensitive than the mixed task. Temporal discrimination threshold results were comparable across common adult-onset primary torsion dystonia phenotypes, with lower sensitivity in the musicians.

  19. Molecular analysis of chromosome 21 in a patient with a phenotype of down syndrome and apparently normal karyotype

    Energy Technology Data Exchange (ETDEWEB)

    Ahlbom, B.E.; Wadelius, C.; Zech, L.; Anneren, G. [Uppsala Univ. (Sweden)] [and others

    1996-06-28

    Down syndrome (DS) is caused in most cases by the presence of an extra chromosome 21. It has been shown that the DS phenotype is produced by duplication of only a small part of the long arm of chromosome 21, the 21q22 region, including and distal to locus D21S55. We present molecular investigations on a woman with clinically typical DS but apparently normal chromosomes. Her parents were consanguineous and she had a sister with a DS phenotype, who died at the age of 15 days. Repeated cytogenetic investigations (G-banding and high resolution banding) on the patient and her parents showed apparently normal chromosomes. Autoradiographs of quantitative Southern blots of DNAs from the patient, her parents, trisomy 21 patients, and normal controls were analyzed after hybridization with unique DNA sequences regionally mapped on chromosome 21. Sequences D21S59, D21S1, D21S11, D21S8, D21S17, D21S55, ERG, D21S15, D21S112, and COL6A1 were all found in two copies. Fluorescent in situ hybridization with a chromosome 21-specific genomic library showed no abnormalities and only two copies of chromosome 21 were detected. Nineteen markers from the critical region studied with polymerase chain reaction amplification of di- and tetranucleotide repeats did not indicate any partial trisomy 21. From his study we conclude that the patient does not have any partial submicroscopic trisomy for any segment of chromosome 21. It seems reasonable to assume that she suffers from an autosomal recessive disorder which is phenotypically indistinguishable from DS. 23 refs., 6 figs., 3 tabs.

  20. Anchor-induced chondral damage in the hip

    Science.gov (United States)

    Matsuda, Dean K.; Bharam, Srino; White, Brian J.; Matsuda, Nicole A.; Safran, Marc

    2015-01-01

    The purpose of this study is to investigate the outcomes from anchor-induced chondral damage of the hip, both with and without frank chondral penetration. A multicenter retrospective case series was performed of patients with chondral deformation or penetration during initial hip arthroscopic surgery. Intra-operative findings, post-surgical clinical courses, hip outcome scores and descriptions of arthroscopic treatment in cases requiring revision surgery and anchor removal are reported. Five patients (three females) of mean age 32 years (range, 16–41 years) had documented anchor-induced chondral damage with mean 3.5 years (range, 1.5–6.0 years) follow-up. The 1 o'clock position (four cases) and anterior and mid-anterior portals (two cases each) were most commonly implicated. Two cases of anchor-induced acetabular chondral deformation without frank penetration had successful clinical and radiographic outcomes, while one case progressed from deformation to chondral penetration with clinical worsening. Of the cases that underwent revision hip arthroscopy, all three had confirmed exposed hard anchors which were removed. Two patients have had clinical improvement and one patient underwent early total hip arthroplasty. Anchor-induced chondral deformation without frank chondral penetration may be treated with close clinical and radiographic monitoring with a low threshold for revision surgery and anchor removal. Chondral penetration should be treated with immediate removal of offending hard anchor implants. Preventative measures include distal-based portals, small diameter and short anchors, removable hard anchors, soft suture-based anchors, curved drill and anchor insertion instrumentation and attention to safe trajectories while visualizing the acetabular articular surface. PMID:27011815

  1. The impact of anchoring bias in the UK equity market

    OpenAIRE

    Koskinen, Matti

    2013-01-01

    PURPOSE OF THE STUDY The purpose of this thesis is to study how the anchoring bias, a cognitive bias, affects equity analysts' forecasts and what kind of implications this bias has for investors and managers of listed companies in the UK stock market. I test whether industry median forecast earnings per share can work as an anchor when analysts are estimating companies' future earnings and how this potential anchoring affects forecast errors, future stock returns, earnings surprises and s...

  2. Stone anchors of India: Findings, classification and significance.

    Digital Repository Service at National Institute of Oceanography (India)

    Tripati, S.

    Virdi, Kodinar); Maharashtra (Dabhol, Vijaydurg, Sindhudurg); Goa (Baga, Grande Island, Sunchi Reef); Kerala (Kannur); Lakshadweep (Minicoy Island); Tamil Nadu (Gulf of Mannar, Tuticorin and Fig. 1 Map showing the stone anchor sites in India. (Sila...-Arabian type from Grande Island (Fig. 3f) and a pyramidal type of stone anchor from Baga waters (Sila Tripati et al., 2013). At first glance, the Baga stone anchor appears like an Indo-Arabian type (Fig. 3g). All these anchors of Goa are chance finds...

  3. Calculation of prestressed anchor segment by 3D infiniteelement

    Institute of Scientific and Technical Information of China (English)

    Yanfen WANG; Hongyang XIE; Yuanhan WANG

    2009-01-01

    Based on 1D infinite element theory, the coordinate transformation and shape function of 3D point-radiation 4-node infinite elements were derived.They were coupled with 8-node finite elements to compute the compressive deformation of the prestressed anchor segment. The results indicate that when the prestressed force acts on the anchor segment, the stresses and displacements in the rock around the anchor segment are concentrated in the zone center with the anchor axis and are subjected to exponential decay. Therefore, the stresses and the displacement spindles are formed. The calculation results of the infinite element are close to the theoretical results.

  4. AUV Load Separation Motion with Constraint of Anchor Chain

    Institute of Scientific and Technical Information of China (English)

    SHAO Cheng; SONG Bao-wei; DU Xiao-xu; WANG Peng; LI Jia-wang

    2009-01-01

    Motion equations of AUV(autonomous underwater vehicle) load separation with the constraint of anchor chain is derived. Based on proper engineering assumptions for anchor chain,system viewpoint is used to found the motion equations, and the D'Alembert principle is used to eliminate the constraint force of anchor chain. Based on the equations, the motion simulation is carried out to a certain AUV, which reflects the actual condition, and is used for the reference of resrarching AUV load separation motion with the constraint of anchor chain.

  5. Moody experts --- How mood and expertise influence judgmental anchoring

    Directory of Open Access Journals (Sweden)

    Birte Englich

    2009-02-01

    Full Text Available Anchoring effects, the assimilation of numerical estimates to previously considered standards, are highly robust. Two studies examined whether mood and expertise jointly moderate the magnitude of anchoring. Previous research has demonstrated that happy mood induces judges to process information in a less thorough manner than sad mood, which means that happy judges tend to be more susceptible to unwanted influences. However, this may not be true for anchoring effects. Because anchoring results from an elaborate process of selective knowledge activation, more thorough processing should lead to more anchoring; as a result, sad judges should show stronger anchoring effects than happy judges and happy judges may even remain uninfluenced by the given anchors. Because information processing of experts may be relatively independent of their mood, however, mood may influence anchoring only in non-experts. Results of two studies on legal decision-making (Study 1 and numeric estimates (Study 2 are consistent with these expectations. These findings suggest that, at least for non-experts, positive mood may eliminate the otherwise robust anchoring effect.

  6. Anchor Fitted with Special Fin for Soil Reinforcement

    Directory of Open Access Journals (Sweden)

    Abdul Ghani A.N.

    2014-01-01

    Full Text Available In order to ensure that anchored soil retention systems are more stable and free from failure, suitable anchors are required. A new technique using anchors with fins were investigated, particularly for mechanically stabilized earth. An experimental laboratory investigation on the behaviour of anchors with fins by using various shapes, sizes, arrangements and lengths were presented. The main purpose of this study is to investigate the load-displacement relationship of pullout anchors with fins embedded in sand. A rectangular model tank with dimensions 0.6 m length, 0.5 m width and 0.3 m high was designed. Models of 15 types of anchors of different lengths (0.3 m, 0.4 m and 0.5 m with fins using different and various types of lengths, sizes and arrangements embedded in sand, were experimented with . The testing program included 45 tests embedded in dry sand. The experiment was conducted in a soil laboratory at a scale of 1:10. The fin was placed at the end of the anchor shaft that abuts the failing structure which prevents further movement. It was concluded that the size, shape and angle of the fin influenced the pullout capacity of the anchor. Finally, selected anchors were recommended based on their superior performance.

  7. Degradation theories of concrete and development of a new deviatoric model in incremental tangent formulation: limit analysis applied to case of anchor bolts embedded in concrete; Theorie de degradation du beton et developpement d'un nouveau modele d'endommagement en formulation incrementale tangente: calcul a la rupture applique au cas des chevilles de fixation ancrees dans le beton

    Energy Technology Data Exchange (ETDEWEB)

    Ung Quoc, H

    2003-12-15

    This research is achieved in the general framework of the study of the concrete behaviour. It has for objective the development of a new behaviour model satisfying to the particular requirements for an industrial exploitation. After the analysis of different existent models, a first development has concerned models based on the smeared crack theory. A new formulation of the theory permitted to overcome the stress locking problem. However, the analysis showed the persistence of some limits inert to this approach in spite of this improvement. Then, an analysis of the physical mechanisms of the concrete degradation has been achieved and permitted to develop the new damage model MODEV. The general formulation of this model is based on the theory of the thermodynamics and applied to the case of the heterogeneous and brittle materials. The MODEV model considers two damage mechanisms: extension and sliding. The model considers also that the relative tangent displacement between microcracks lips is responsible of the strain irreversibility. Thus, the rate of inelastic strain becomes function of the damage and the heterogeneity index of the material. The unilateral effect is taken in account as an elastic hardening or softening process according to re-closing or reopening of cracks. The model is written within the framework of non standard generalised materials in incremental tangent formulation and implemented in the general finite element code SYMPHONIE. The validation of the model has been achieved on the basis of several tests issued from the literature. The second part of this research has concerned the development of the CHEVILAB software. This simulation tool based on the limit analysis approach permit the evaluation of the ultimate load capacity of anchors bolts. The kinematics approach of the limit analysis has been adapted to the problem of anchors while considering several specific failure mechanisms. This approach has been validated then by comparison with the

  8. Expanding the genotype-phenotype correlation in subtelomeric 19p13.3 microdeletions using high resolution clinical chromosomal microarray analysis.

    Science.gov (United States)

    Peddibhotla, Sirisha; Khalifa, Mohamed; Probst, Frank J; Stein, Jennifer; Harris, Leslie L; Kearney, Debra L; Vance, Gail H; Bull, Marilyn J; Grange, Dorothy K; Scharer, Gunter H; Kang, Sue-Hae L; Stankiewicz, Pawel; Bacino, Carlos A; Cheung, Sau W; Patel, Ankita

    2013-12-01

    Structural rearrangements of chromosome 19p are rare, and their resulting phenotypic consequences are not well defined. This is the first study to report a cohort of eight patients with subtelomeric 19p13.3 microdeletions, identified using clinical chromosomal microarray analysis (CMA). The deletion sizes ranged from 0.1 to 0.86 Mb. Detailed analysis of the patients' clinical features has enabled us to define a constellation of clinical abnormalities that include growth delay, multiple congenital anomalies, global developmental delay, learning difficulties, and dysmorphic facial features. There are eight genes in the 19p13.3 region that may potentially contribute to the clinical phenotype via haploinsufficiency. Moreover, in silico genomic analysis of 19p13.3 microdeletion breakpoints revealed numerous highly repetitive sequences, suggesting LINEs/SINEs-mediated events in generating these microdeletions. Thus, subtelomeric 19p13.3 appears important for normal embryonic and childhood development. The clinical description of patients with deletions in this genomic interval will assist clinicians to identify and treat individuals with similar deletions.

  9. 预应力锚杆框架梁边坡加固结构的应用分析%Applied Analysis of Slope Structure Reinforced with Prestressed Anchored Frame Beam

    Institute of Scientific and Technical Information of China (English)

    周宏元; 曾智勇

    2013-01-01

    研究目的:对土质或较为破碎软质岩体深路堑,为降低边坡高度及保持边坡稳定,避免剥皮刷方、大面积破坏山体、植被,以往常采用坡脚高挡墙或锚固桩收坡支护的传统工程措施,在大规模机械化施工的形式下,存在施工安全隐患.在客运专线工程建设中,对此类边坡,为控制边坡高度,降低工程风险,方便施工,保证边坡施工安全及长期稳定性;同时较好地满足绿化环境,节约圬工及投资的要求,采用坡脚矮挡墙支护,上部边坡适当抽陡,有必要以预应力锚杆(索)框架梁结构进行分级加固.研究结论:对土质或软质岩路堑,采用抽陡边坡“小吨位(锚固预应力)、密间距”的预应力钢筋锚杆框架梁加固与坡脚墙组合形成的轻型支护结构,框架梁内采用适宜的植物防护措施,技术成熟、工艺先进、合理可靠,具有较高的推广应用价值.%Research purposes: For the deep soft soil or soft rock cutting, the traditional engineering measures of the toe retaining wall or the slope end supporting with anchor pile is often taken to reduce the slope height, remain the slope stability and avoid the rock moving away and destroy mountain and vegetation massly. However, under the condition of the mechanized construction in large scale, there are the security risks when taking these measures. For building such kind of the slope of passenger dedicated line, the toe low retaining wall and the uper steep slope are used in order to well control the slope height, cut the construction risk, be convenient for construction and ensure the construction security and the long - term stability of the slope as well as to meet the requirements of greening the environment, saving the mason and reducing the investment. So it is necessary to reinforce the prestressed anchored frame beam in grade. Research conclusions: For the soft soil or soft rock cutting, the light structure of combination of the dense

  10. Photoacoustic analysis of the solubilization kinetics of pulmonary secretions from cystic fibrosis patients - secretor and non-secretor phenotypes

    Science.gov (United States)

    Barja, P. R.; Coelho, C. C.; Paiva, R. F.; Barboza, M. A.; Matos, L. C.; Matos, C. C. B.; Oliveira, L. V. F.

    2010-03-01

    Cystic fibrosis (CF) is an autosomal recessive inherited disease that increases viscoelasticity of pulmonary secretions. Affected patients are required to use therapeutic aerosols continuously. The expression of ABH glycoconjugates in exocrine secretions determines the nature of part of the carbohydrates present in these secretions, allowing the classification of individuals into the so-called "secretor" and "non secretor" phenotypes. The aim of this work was to employ photoacoustic (PA) measurements to monitor the solubilization kinetics of pulmonary secretions from CF patients, analyzing the influence of the secretor status in the solubilization kinetics of samples nebulized with different therapeutic aerosols. Sputum samples were obtained by spontaneous expectoration from positive and negative secretor CF patients. Each sample was nebulized with i) tobramycin, ii) alpha dornase, and iii) N-acetylcysteine in a PA cell; fitting of the data with the Boltzmann equation led to the determination of t0 (typical interaction time) and Δt (solubilization interval) for each curve. Differences between the secretor and non-secretor phenotypes were statistically significant in the groups for tobramycin and alpha dornase, but not for N-acetylcysteine. Results show that the secretor status influences the solubilization of pulmonary mucus of CF patients nebulized with tobramycin and alpha dornase.

  11. Photoacoustic analysis of the solubilization kinetics of pulmonary secretions from cystic fibrosis patients - secretor and non-secretor phenotypes

    Energy Technology Data Exchange (ETDEWEB)

    Barja, P R; Coelho, C C; Paiva, R F [Research and Development Institute, UNIVAP, Av. Shishima Hifumi 2911, Sao Jose dos Campos, SP (Brazil); Barboza, M A; Matos, L C; Matos, C C B [Faculty of Medicine of Sao Jose do Rio Preto (FAMERP), Sao Jose do Rio Preto, SP (Brazil); Oliveira, L V F, E-mail: barja@univap.b [Rehabilitation Sciences Master' s Program, Nove de Julho University (UNINOVE), Sao Paulo, SP (Brazil)

    2010-03-01

    Cystic fibrosis (CF) is an autosomal recessive inherited disease that increases viscoelasticity of pulmonary secretions. Affected patients are required to use therapeutic aerosols continuously. The expression of ABH glycoconjugates in exocrine secretions determines the nature of part of the carbohydrates present in these secretions, allowing the classification of individuals into the so-called 'secretor' and 'non secretor' phenotypes. The aim of this work was to employ photoacoustic (PA) measurements to monitor the solubilization kinetics of pulmonary secretions from CF patients, analyzing the influence of the secretor status in the solubilization kinetics of samples nebulized with different therapeutic aerosols. Sputum samples were obtained by spontaneous expectoration from positive and negative secretor CF patients. Each sample was nebulized with i) tobramycin, ii) alpha dornase, and iii) N-acetylcysteine in a PA cell; fitting of the data with the Boltzmann equation led to the determination of t{sub 0} (typical interaction time) and {Delta}t (solubilization interval) for each curve. Differences between the secretor and non-secretor phenotypes were statistically significant in the groups for tobramycin and alpha dornase, but not for N-acetylcysteine. Results show that the secretor status influences the solubilization of pulmonary mucus of CF patients nebulized with tobramycin and alpha dornase.

  12. Photoacoustic analysis of the solubilization kinetics of pulmonary secretions from cystic fibrosis patients - secretor and non-secretor phenotypes

    International Nuclear Information System (INIS)

    Cystic fibrosis (CF) is an autosomal recessive inherited disease that increases viscoelasticity of pulmonary secretions. Affected patients are required to use therapeutic aerosols continuously. The expression of ABH glycoconjugates in exocrine secretions determines the nature of part of the carbohydrates present in these secretions, allowing the classification of individuals into the so-called 'secretor' and 'non secretor' phenotypes. The aim of this work was to employ photoacoustic (PA) measurements to monitor the solubilization kinetics of pulmonary secretions from CF patients, analyzing the influence of the secretor status in the solubilization kinetics of samples nebulized with different therapeutic aerosols. Sputum samples were obtained by spontaneous expectoration from positive and negative secretor CF patients. Each sample was nebulized with i) tobramycin, ii) alpha dornase, and iii) N-acetylcysteine in a PA cell; fitting of the data with the Boltzmann equation led to the determination of t0 (typical interaction time) and Δt (solubilization interval) for each curve. Differences between the secretor and non-secretor phenotypes were statistically significant in the groups for tobramycin and alpha dornase, but not for N-acetylcysteine. Results show that the secretor status influences the solubilization of pulmonary mucus of CF patients nebulized with tobramycin and alpha dornase.

  13. Development of a porcine skeletal muscle cDNA microarray: analysis of differential transcript expression in phenotypically distinct muscles

    Directory of Open Access Journals (Sweden)

    Stear Michael

    2003-03-01

    Full Text Available Abstract Background Microarray profiling has the potential to illuminate the molecular processes that govern the phenotypic characteristics of porcine skeletal muscles, such as hypertrophy or atrophy, and the expression of specific fibre types. This information is not only important for understanding basic muscle biology but also provides underpinning knowledge for enhancing the efficiency of livestock production. Results We report on the de novo development of a composite skeletal muscle cDNA microarray, comprising 5500 clones from two developmentally distinct cDNA libraries (longissimus dorsi of a 50-day porcine foetus and the gastrocnemius of a 3-day-old pig. Clones selected for the microarray assembly were of low to moderate abundance, as indicated by colony hybridisation. We profiled the differential expression of genes between the psoas (red muscle and the longissimus dorsi (white muscle, by co-hybridisation of Cy3 and Cy5 labelled cDNA derived from these two muscles. Results from seven microarray slides (replicates correctly identified genes that were expected to be differentially expressed, as well as a number of novel candidate regulatory genes. Quantitative real-time RT-PCR on selected genes was used to confirm the results from the microarray. Conclusion We have developed a porcine skeletal muscle cDNA microarray and have identified a number of candidate genes that could be involved in muscle phenotype determination, including several members of the casein kinase 2 signalling pathway.

  14. Growth Curve Models for the Analysis of Phenotype Arrays for a Systems Biology Overview of Yersinia pestis

    Energy Technology Data Exchange (ETDEWEB)

    Fodor, I K; Holtz-Morris, A E; McCutchen-Maloney, S L

    2005-09-08

    The Phenotype MicroArray technology of Biolog, Inc. (Hayward, CA) measures the respiration of cells as a function of time in thousands of microwells simultaneously, and thus provides a high-throughput means of studying cellular phenotypes. The microwells contain compounds involved in a number of biochemical pathways, as well as chemicals that test the sensitivity of cells against antibiotics and stress. While the PM experimental workflow is completely automated, statistical methods to analyze and interpret the data are lagging behind. To take full advantage of the technology, it is essential to develop efficient analytical methods to quantify the information in the complex datasets resulting from PM experiments. We propose the use of statistical growth-curve models to rigorously quantify observed differences in PM experiments, in the context of the growth and metabolism of Yersinia pestis cells grown under different physiological conditions. The information from PM experiments complement genomic and proteomic results and can be used to identify gene function and in drug development. Successful coupling of phenomics results with genomics and proteomics will lead to an unprecedented ability to characterize bacterial function at a systems biology level.

  15. A locus-specific database for mutations in GDAP1 allows analysis of genotype-phenotype correlations in Charcot-Marie-Tooth diseases type 4A and 2K

    Directory of Open Access Journals (Sweden)

    Cassereau Julien

    2011-12-01

    Full Text Available Abstract Background The ganglioside-induced differentiation-associated protein 1 gene (GDAP1, which is involved in the Charcot-Marie-Tooth disease (CMT, the most commonly inherited peripheral neuropathy, encodes a protein anchored to the mitochondrial outer membrane. The phenotypic presentations of patients carrying GDAP1 mutations are heterogeneous, making it difficult to determine genotype-phenotype correlations, since the majority of the mutations have been found in only a few unrelated patients. Locus-specific databases (LSDB established in the framework of the Human Variome Project provide powerful tools for the investigation of such rare diseases. Methods and Results We report the development of a publicly accessible LSDB for the GDAP1 gene. The GDAP1 LSDB has adopted the Leiden Open-source Variation Database (LOVD software platform. This database, which now contains 57 unique variants reported in 179 cases of CMT, offers a detailed description of the molecular, clinical and electrophysiological data of the patients. The usefulness of the GDAP1 database is illustrated by the finding that GDAP1 mutations lead to primary axonal damage in CMT, with secondary demyelination in the more severe cases of the disease. Conclusion Findings of this nature should lead to a better understanding of the pathophysiology of CMT. Finally, the GDAP1 LSDB, which is part of the mitodyn.org portal of databases of genes incriminated in disorders involving mitochondrial dynamics and bioenergetics, should yield new insights into mitochondrial diseases.

  16. Expanding the clinical and molecular characteristics of PIGT-CDG, a disorder of glycosylphosphatidylinositol anchors.

    Science.gov (United States)

    Lam, Christina; Golas, Gretchen A; Davids, Mariska; Huizing, Marjan; Kane, Megan S; Krasnewich, Donna M; Malicdan, May Christine V; Adams, David R; Markello, Thomas C; Zein, Wadih M; Gropman, Andrea L; Lodish, Maya B; Stratakis, Constantine A; Maric, Irina; Rosenzweig, Sergio D; Baker, Eva H; Ferreira, Carlos R; Danylchuk, Noelle R; Kahler, Stephen; Garnica, Adolfo D; Bradley Schaefer, G; Boerkoel, Cornelius F; Gahl, William A; Wolfe, Lynne A

    2015-01-01

    PIGT-CDG, an autosomal recessive syndromic intellectual disability disorder of glycosylphosphatidylinositol (GPI) anchors, was recently described in two independent kindreds [Multiple Congenital Anomalies-Hypotonia-Seizures Syndrome 3 (OMIM, #615398)]. PIGT encodes phosphatidylinositol-glycan biosynthesis class T, a subunit of the heteropentameric transamidase complex that facilitates the transfer of GPI to proteins. GPI facilitates attachment (anchoring) of proteins to cell membranes. We describe, at ages 7 and 6 years, two children of non-consanguineous parents; they had hypotonia, severe global developmental delay, and intractable seizures along with endocrine, ophthalmologic, skeletal, hearing, and cardiac anomalies. Exome sequencing revealed that both siblings had compound heterozygous variants in PIGT (NM_015937.5), i.e., c.918dupC, a novel duplication leading to a frameshift, and c.1342C > T encoding a previously described missense variant. Flow cytometry studies showed decreased surface expression of GPI-anchored proteins on granulocytes, consistent with findings in previous cases. These siblings further delineate the clinical spectrum of PIGT-CDG, reemphasize the neuro-ophthalmologic presentation, clarify the endocrine features, and add hypermobility, low CSF albumin quotient, and hearing loss to the phenotypic spectrum. Our results emphasize that GPI anchor-related congenital disorders of glycosylation (CDGs) should be considered in subjects with early onset severe seizure disorders and dysmorphic facial features, even in the presence of a normal carbohydrate-deficient transferrin pattern and N-glycan profiling. Currently available screening for CDGs will not reliably detect this family of disorders, and our case reaffirms that the use of flow cytometry and genetic testing is essential for diagnosis in this group of disorders.

  17. Stable isotope phenotyping via cluster analysis of NanoSIMS data as a method for characterizing distinct microbial ecophysiologies and sulfur-cycling in the environment

    Directory of Open Access Journals (Sweden)

    Katherine S Dawson

    2016-05-01

    Full Text Available Stable isotope probing (SIP is a valuable tool for gaining insights into ecophysiology and biogeochemical cycling of environmental microbial communities by tracking isotopically labeled compounds into cellular macromolecules as well as into byproducts of respiration. SIP, in conjunction with nanoscale secondary ion mass spectrometry (NanoSIMS, allows for the visualization of isotope incorporation at the single cell level. In this manner, both active cells within a diverse population as well as heterogeneity in metabolism within a homogeneous population can be observed. The ecophysiological implications of these single cell stable isotope measurements are often limited to the taxonomic resolution of paired fluorescence in situ hybridization (FISH microscopy. Here we introduce a taxonomy-independent method using multi-isotope SIP and NanoSIMS for identifying and grouping phenotypically similar microbial cells by their chemical and isotopic fingerprint. This method was applied to SIP experiments in a sulfur-cycling biofilm collected from sulfidic intertidal vents amended with 13C-acetate, 15N-ammonium, and 33S-sulfate. Using a cluster analysis technique based on fuzzy c-means to group cells according to their isotope (13C/12C, 15N/14N, and 33S/32S and elemental ratio (C/CN and S/CN profiles, our analysis partitioned ~2200 cellular regions of interest (ROIs into 5 distinct groups. These isotope phenotype groupings are reflective of the variation in labeled substrate uptake by cells in a multispecies metabolic network dominated by Gamma- and Deltaproteobacteria. Populations independently grouped by isotope phenotype were subsequently compared with paired FISH data, demonstrating a single coherent deltaproteobacterial cluster and multiple gammaproteobacterial groups, highlighting the distinct ecophysiologies of spatially-associated microbes within the sulfur-cycling biofilm from White Point Beach, CA.

  18. Dynamic calculation model and seismic response for frame supporting structure with prestressed anchors

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    A dynamic calculation model of frame supporting structures with prestressed anchors for the slope stability is proposed. The frame and soil are closely contacted in the role of prestressed anchors and they cannot be separated along the whole slope. The lateral displacement of frame and soil is nearly in phase. The movement characteristic satisfies the theory of elastic foundation beam. The frame is treated with elastic foundation beam in this model. The influence of prestressed anchors is simplified as linear spring and damped system related with velocity. Under the condition of horizontal earthquake excitation, the equation of vibration response is established by using the model of dynamic Winkler beam and the analytical solutions are obtained for simple harmonic vibration. This method is applied to a case record for illustration of its capability, in order to verify the method, 3D nonlinear FEM (ADINA) is used to analyze the seismic performance of this case, the comparative results show that the design and the analysis are safe and credible by using the proposed method. The calculation model provides a new way for earthquake analysis and seismic design of slope stability supported by frame structure with prestressed anchors.

  19. Phenotypic screening, transcriptional profiling, and comparative genomic analysis of an invasive and non-invasive strain of Candida albicans

    Directory of Open Access Journals (Sweden)

    Schaller Martin

    2008-10-01

    Full Text Available Abstract Background Invasion of host tissue by the human fungal pathogen Candida albicans is an important step during the development of candidosis. However, not all C. albicans strains possess the same invasive and virulence properties. For example, the two clinical isolates SC5314 and ATCC10231 differ in their ability to invade host tissue and cause experimental infections. Strain SC5314 is invasive whereas strain ATCC10231 is non-invasive and strongly attenuated in virulence compared to SC5314. In this study we compare the in vitro phenotypic, transcriptional and genomic profiles of these two widely used laboratory strains in order to determine the principal biological and genetic properties responsible for their differential virulence. Results In all media tested, the two strains showed the same metabolic flexibility, stress resistance, adhesion properties and hydrolytic enzyme secretion in vitro. However, differences were observed in response to cell-surface disturbing agents and alkaline pH. Furthermore, reduced hyphal formation in strain ATCC10231 under certain conditions correlated with reduced invasive properties in an in vitro invasion assay and a reduced ability to invade epithelial tissue. Despite these diverse phenotypic properties, no substantial genomic differences were detected by comparative genome hybridisation within the open reading frames. However, in vitro transcriptional profiling displayed major differences in the gene expression of these two strains, even under normal in vitro growth conditions. Conclusion Our data suggest that the reason for differential virulence of C. albicans strains is not due to the absence of specific genes, but rather due to differences in the expression, function or activity of common genes.

  20. Microglia phenotype diversity

    NARCIS (Netherlands)

    Olah, M.; Biber, K.; Vinet, J.; Boddeke, H. W. G. M.

    2011-01-01

    Microglia, the tissue macrophages of the brain, have under healthy conditions a resting phenotype that is characterized by a ramified morphology. With their fine processes microglia are continuously scanning their environment. Upon any homeostatic disturbance microglia rapidly change their phenotype

  1. 30 CFR 57.9311 - Anchoring stationary sizing devices.

    Science.gov (United States)

    2010-07-01

    ... 30 Mineral Resources 1 2010-07-01 2010-07-01 false Anchoring stationary sizing devices. 57.9311 Section 57.9311 Mineral Resources MINE SAFETY AND HEALTH ADMINISTRATION, DEPARTMENT OF LABOR METAL AND... Dumping Sites § 57.9311 Anchoring stationary sizing devices. Grizzlies and other stationary sizing...

  2. 30 CFR 56.9311 - Anchoring stationary sizing devices.

    Science.gov (United States)

    2010-07-01

    ... 30 Mineral Resources 1 2010-07-01 2010-07-01 false Anchoring stationary sizing devices. 56.9311 Section 56.9311 Mineral Resources MINE SAFETY AND HEALTH ADMINISTRATION, DEPARTMENT OF LABOR METAL AND... Dumping Sites § 56.9311 Anchoring stationary sizing devices. Grizzlies and other stationary sizing...

  3. Understanding Rasch Measurement: Partial Credit Model and Pivot Anchoring.

    Science.gov (United States)

    Bode, Rita K.

    2001-01-01

    Describes the Rasch measurement partial credit model, what it is, how it differs from other Rasch models, and when and how to use it. Also describes the calibration of instruments with increasingly complex items. Explains pivot anchoring and illustrates its use and describes the effect of pivot anchoring on step calibrations, item hierarchy, and…

  4. Stability analysis of slope supported by frame with pre-stressed anchors under earthquake%框架预应力锚杆支护边坡地震动稳定性分析方法

    Institute of Scientific and Technical Information of China (English)

    叶帅华; 朱彦鹏

    2012-01-01

    Under the situation of considering the anchor prestress effects on stability of loess slope,according to the damage of the sliding surface,stability model of slope supported by frame with pre-stressed anchors under earthquake was established.By the method of lumped-mass explicit finite element,the soil was separated into soil-static-dynamic micro-unit and soil-prestressed micro-unit discretely,and the corresponding discrete element dynamic equilibrium equation was established,the displacement response and the stress field in sliding surface of the supporting slope were deduceed.Based on the displacement response and the soil stress field,a calculation method of stability safety factor for slope supported by frame with pre-stressed anchors under earthquake was proposed.A project example was analyzed by using the method proposed in this paper,the result was compared with the one of the quasi-static method.Comparison results show that the method proposed in this paper for the homogeneous loess slope is feasible,the earthquake reaction of the supporting loess slope and the dynamic performance of the soil can be showed primely compared with pseudo-static method.%在考虑锚杆预应力对黄土边坡稳定性影响的情况下,根据土体边坡滑移面的破坏模式,建立了框架预应力锚杆支护边坡的地震稳定性分析模型。利用集中质量显式有限元法,将土体离散为土体静动力微元和土体预应力微元,并建立了相应的离散动力平衡方程,推导了边坡在地震作用下的位移反应和滑移面上的应力场。基于位移反应和土体应力场,提出了框架预应力锚杆支护边坡在地震作用下的稳定性安全系数计算方法。用本文方法针对某一工程实例进行分析,并与拟静力法的结果进行比较。比较结果表明,本文方法对于土质均匀的黄土边坡是可行的,相比拟静力法,更能反应黄土支护边坡的地震作用和土的动力特性。

  5. Analysis of genetic distance between Peruvian Alpaca (Vicugna Pacos showing two distinct fleece phenotypes, Suri and Huacaya, by means of microsatellite markers

    Directory of Open Access Journals (Sweden)

    Carlo Renieri

    2011-10-01

    Full Text Available Two coat phenotypes exist in Alpaca, Huacaya and Suri. The two coats show different fleece structure, textile characteristics and prices on the market. Although present scientific knowledge suggests a simple genetic model of inheritance, there is a tendency to manage and consider the two phenotypes as two different breeds. A 13 microsatellite panel was used in this study to assess genetic distance between Suri and Huacaya alpacas in a sample of non-related animals from two phenotypically pure flocks at the Illpa-Puno experimental station in Quimsachata, Peru. The animals are part of a germplasm established approximately 20 years ago and have been bred separately according to their coat type since then. Genetic variability parameters were also calculated. The data were statistically analyzed using the software Genalex 6.3, Phylip 3.69 and Fstat 2.9.3.2. The sample was tested for Hardy-Weinberg equilibrium (HWE and after strict Bonferroni correction only one locus (LCA37 showed deviation from equilibrium (Ploci associations showed significant disequilibrium. Observed heterozygosis (Ho= 0.766; SE=0.044, expected heterozygosis (He=0.769; SE=0.033, number of alleles (Na=9.667, SE=0.772 and Fixation index (F=0.004; SE=0.036 are comparable to data from previous studies. Measures of genetic distance were 0.06 for Nei’s and 0.03 for Cavalli-Sforza’s. The analysis of molecular variance reported no existing variance between populations. Considering the origin of the animals, their post domestication evolution and the reproductive practices in place, the results do not show genetic differentiation between the two populations for the studied loci.

  6. Comparative analysis of gingival phenotype in animal and human experimental models using optical coherence tomography in a non-invasive approach

    Science.gov (United States)

    Mota, Cláudia C. B. O.; Fernandes, Luana O.; Melo, Luciana S. A.; Feitosa, Daniela S.; Cimões, Renata; Gomes, Anderson S. L.

    2015-06-01

    Imaging methods are widely used in diagnostic and among the diversity of modalities, optical coherence tomography (OCT) is nowadays commercially available and considered the most innovative technique used for imaging applications, in both medical and non-medical applications. In this study, we exploit the OCT technique in the oral cavity for identification and differentiation between free and attached gingiva, as well as determining the gingival phenotype, an important factor to determination of periodontal prognosis in patients. For the animal studies, five porcine jaws were analyzed using a Swept Source SS-OCT system operating at 1325nm and stereomicroscope, as gold pattern. The SSOCT at 1325nm was chosen due to the longer central wavelength, that allows to deeper penetration imaging, and the faster image acquisition, an essential factor for clinical setting. For the patient studies, a total of 30 males and female were examined using the SS-OCT at 1325nm and computer controlled periodontal probing. 2D and 3D images of tooth/gingiva interface were performed, and quantitative measurements of the gingival sulcus could be noninvasively obtained. Through the image analysis of the animals jaws, it was possible to quantify the free gingiva and the attached gingiva, the calculus deposition over teeth surface and also the subgingival calculus. For the patient's studies, we demonstrated that the gingival phenotype could be measured without the periodontal probe introduction at the gingival sulcus, confirming that OCT can be potentially useful in clinic for direct observation and quantification of gingival phenotype in a non-invasive approach.

  7. Electrically insulated MLI and thermal anchor

    Science.gov (United States)

    Kamiya, Koji; Furukawa, Masato; Hatakenaka, Ryuta; Miyakita, Takeshi; Murakami, Haruyuki; Kizu, Kaname; Tsuchiya, Katsuhiko; Koidea, Yoshihiko; Yoshida, Kiyoshi

    2014-01-01

    The thermal shield of JT-60SA is kept at 80 K and will use the multilayer insulation (MLI) to reduce radiation heat load to the superconducting coils at 4.4 K from the cryostat at 300 K. Due to plasma pulse operation, the MLI is affected by eddy current in toroidal direction. The MLI is designed to suppress the current by electrically insulating every 20 degree in the toroidal direction by covering the MLI with polyimide films. In this paper, two kinds of designs for the MLI system are proposed, focusing on a way to overlap the layers. A boil-off calorimeter method and temperature measurement has been performed to determine the thermal performance of the MLI system. The design of the electrical insulated thermal anchor between the toroidal field (TF) coil and the thermal shield is also explained.

  8. Operative treatment of acromioclavicular joint dislocation: a new technique with suture anchors

    Directory of Open Access Journals (Sweden)

    Zhang Jingwei

    2014-07-01

    Full Text Available 【Abstract】Objective: To evaluate clinical outcome of suture anchors in strengthening both acromioclavicular and coracoclavicular ligaments in the surgical treatment of acromioclavicular joint dislocation. Methods: Twenty-eight patients with acute traumatic Rockwood III, IV and V dislocations of the acromioclavicular joint surgically treated at our institute between October 2010 and January 2012 were recruited. All patients underwent open reduction combined with suture anchors. Function was evaluated using the ConstantMurley shoulder score. Clinical and radiographic shoulder ratings were evaluated using Taft criteria at 3, 6 and 12 months. Results:Two cases with fixation loosening were not included in final statistical analysis. Other patients obtained full joint reposition on immediate postoperative radiographs. Follow-up was performed with an average of 15.6 months (range, 12-19. After early range of motion exercises, 96.2% of the patients (25/26 could abduct and elevate their shoulders more than 90 degrees within postoperative 3 months. There was no infection. Average Constant-Murley score was 96.3 points (range, 94-100 and mean Taft shoulder rating was 10.7 points (range, 8-12 at 12 months. Conclusion: The suture anchor is a relatively simple technique and can avoid screw removal which is helpful in reconstructing both acromioclavicular and coracoclavicular ligaments in acute traumatic acromioclavicular joint dislocation. Key words: Acromioclavicular joint; Dislocations; Surgery; Suture anchors

  9. Anchoring submersible ultrasonic receivers in river channels with stable substrate

    Science.gov (United States)

    Bettoli, Phillip William; Scholten, G.D.; Hubbs, D.

    2010-01-01

    We developed an anchoring system for submersible ultrasonic receivers (SURs) that we placed on the bottom of the riverine reaches of three main-stem reservoirs in the upper Tennessee River. Each anchor consisted of a steel tube (8.9 x 35.6 cm) welded vertically to a round plate of steel (5.1 x 40.6 cm). All seven SURs and their 57-kg anchors were successfully deployed and retrieved three times over 547 d by a dive team employing surface air-breathing equipment and a davit-equipped boat. All of the anchors and their SURs remained stationary over two consecutive winters on the hard-bottom, thalweg sites where they were deployed. The SUR and its anchor at the most downriver site experienced flows that exceeded 2,100 m(3)/s and mean water column velocities of about 0.9 m/s.

  10. Molecular interactions of the neuronal GPI-anchored lipocalin Lazarillo.

    Science.gov (United States)

    Sanchez, Diego; Ortega-Cubero, Sara; Akerström, Bo; Herrera, Macarena; Bastiani, Michael J; Ganfornina, Maria D

    2008-01-01

    Lazarillo, a glycoprotein involved in axon growth and guidance in the grasshopper embryo, is the only member of the lipocalin family that is attached to the cell surface by a GPI anchor. Recently, the study of Lazarillo homologous genes in Drosophila and mouse has revealed new functions in the regulation of lifespan, stress resistance and neurodegeneration. Here we report an analysis of biochemical properties of Lazarillo to gain insight into the molecular basis of its physiological function. Recombinant forms of the grasshopper protein were expressed in two different systems to test: (1) potential binding of several hydrophobic ligands; (2) protein-protein homophilic interactions; and (3) whether interaction with the function-blocking mAb 10E6 interferes with ligand binding. We tested 10 candidate ligands (retinoic acid, heme, bilirubin, biliverdin, ecdysterone, juvenile hormone, farnesol, arachidonic acid, linoleic acid and palmitic acid), and monitored binding using electrophoretic mobility shift, absorbance spectrum, and fluorimetry assays. Our work indicates binding to heme and retinoic acid, resulting in increased electrophoretic mobility, as well as to fatty acids, resulting in multimerization. Retinoic acid and fatty acids binding were confirmed by fluorescence titration, and heme binding was confirmed with absorbance spectrum assays. We demonstrate that Lazarillo oligomerizes in solution and can form clusters in the plasma membrane when expressed and GPI-anchored to the cell surface, however it is unable to mediate cell-cell adhesion. Finally, by ligand-mAb competition experiments we show that ligand-binding alone cannot be the key factor for Lazarillo to perform its function during axonal growth in the grasshopper embryo.

  11. Grapnel stone anchors from Saurashtra: Remnants of Indo-Arab trade on the Indian coast

    Digital Repository Service at National Institute of Oceanography (India)

    Gaur, A.S.; Sundaresh; Tripati, S.

    Stone anchors have been used as a primary source of information on ancient navigation by marine archaeologists since long. These anchors used by ancient mariners are often noticed underwater at various places across the world. Stone anchors are also...

  12. Pyramidal anchor stone from Baga waters of Goa, west coast of India

    Digital Repository Service at National Institute of Oceanography (India)

    Tripati, S.

    Underwater exploration in the coastal region off Baga (Goa, India) led to the recovery of an isolated stone artefact, which resembles a pyramidal type of anchor stone. This anchor stone is unlike to other pyramidal anchor stones found elsewhere...

  13. The Use of Two Anchors in Nonequivalent Groups with Anchor Test (NEAT) Equating. Research Report. ETS RR-10-23

    Science.gov (United States)

    Moses, Tim; Deng, Weiling; Zhang, Yu-Li

    2010-01-01

    In the equating literature, a recurring concern is that equating functions that utilize a single anchor to account for examinee groups' nonequivalence are biased when the groups are extremely different and/or when the anchor only weakly measures what the tests measure. Several proposals have been made to address this equating bias by incorporating…

  14. SM2PH-db: an interactive system for the integrated analysis of phenotypic consequences of missense mutations in proteins involved in human genetic diseases.

    Science.gov (United States)

    Friedrich, Anne; Garnier, Nicolas; Gagnière, Nicolas; Nguyen, Hoan; Albou, Laurent-Philippe; Biancalana, Valérie; Bettler, Emmanuel; Deléage, Gilbert; Lecompte, Odile; Muller, Jean; Moras, Dino; Mandel, Jean-Louis; Toursel, Thierry; Moulinier, Luc; Poch, Olivier

    2010-02-01

    Understanding how genetic alterations affect gene products at the molecular level represents a first step in the elucidation of the complex relationships between genotypic and phenotypic variations, and is thus a major challenge in the postgenomic era. Here, we present SM2PH-db (http://decrypthon.igbmc.fr/sm2ph), a new database designed to investigate structural and functional impacts of missense mutations and their phenotypic effects in the context of human genetic diseases. A wealth of up-to-date interconnected information is provided for each of the 2,249 disease-related entry proteins (August 2009), including data retrieved from biological databases and data generated from a Sequence-Structure-Evolution Inference in Systems-based approach, such as multiple alignments, three-dimensional structural models, and multidimensional (physicochemical, functional, structural, and evolutionary) characterizations of mutations. SM2PH-db provides a robust infrastructure associated with interactive analysis tools supporting in-depth study and interpretation of the molecular consequences of mutations, with the more long-term goal of elucidating the chain of events leading from a molecular defect to its pathology. The entire content of SM2PH-db is regularly and automatically updated thanks to a computational grid data federation facilities provided in the context of the Decrypthon program.

  15. Sustained productivity in recombinant Chinese Hamster Ovary (CHO cell lines: proteome analysis of the molecular basis for a process-related phenotype

    Directory of Open Access Journals (Sweden)

    Gammell Patrick

    2011-07-01

    Full Text Available Abstract Background The ability of mammalian cell lines to sustain cell specific productivity (Qp over the full duration of bioprocess culture is a highly desirable phenotype, but the molecular basis for sustainable productivity has not been previously investigated in detail. In order to identify proteins that may be associated with a sustained productivity phenotype, we have conducted a proteomic profiling analysis of two matched pairs of monoclonal antibody-producing Chinese hamster ovary (CHO cell lines that differ in their ability to sustain productivity over a 10 day fed-batch culture. Results Proteomic profiling of inherent differences between the two sets of comparators using 2D-DIGE (Difference Gel Electrophoresis and LC-MS/MS resulted in the identification of 89 distinct differentially expressed proteins. Overlap comparisons between the two sets of cell line pairs identified 12 proteins (AKRIB8, ANXA1, ANXA4, EIF3I, G6PD, HSPA8, HSP90B1, HSPD1, NUDC, PGAM1, RUVBL1 and CNN3 that were differentially expressed in the same direction. Conclusion These proteins may have an important role in sustaining high productivity of recombinant protein over the duration of a fed-batch bioprocess culture. It is possible that many of these proteins could be useful for future approaches to successfully manipulate or engineer CHO cells in order to sustain productivity of recombinant protein.

  16. Sustained productivity in recombinant Chinese Hamster Ovary (CHO) cell lines: proteome analysis of the molecular basis for a process-related phenotype

    LENUS (Irish Health Repository)

    Meleady, Paula

    2011-07-24

    Abstract Background The ability of mammalian cell lines to sustain cell specific productivity (Qp) over the full duration of bioprocess culture is a highly desirable phenotype, but the molecular basis for sustainable productivity has not been previously investigated in detail. In order to identify proteins that may be associated with a sustained productivity phenotype, we have conducted a proteomic profiling analysis of two matched pairs of monoclonal antibody-producing Chinese hamster ovary (CHO) cell lines that differ in their ability to sustain productivity over a 10 day fed-batch culture. Results Proteomic profiling of inherent differences between the two sets of comparators using 2D-DIGE (Difference Gel Electrophoresis) and LC-MS\\/MS resulted in the identification of 89 distinct differentially expressed proteins. Overlap comparisons between the two sets of cell line pairs identified 12 proteins (AKRIB8, ANXA1, ANXA4, EIF3I, G6PD, HSPA8, HSP90B1, HSPD1, NUDC, PGAM1, RUVBL1 and CNN3) that were differentially expressed in the same direction. Conclusion These proteins may have an important role in sustaining high productivity of recombinant protein over the duration of a fed-batch bioprocess culture. It is possible that many of these proteins could be useful for future approaches to successfully manipulate or engineer CHO cells in order to sustain productivity of recombinant protein.

  17. Array-based FMR1 sequencing and deletion analysis in patients with a fragile X syndrome-like phenotype.

    Directory of Open Access Journals (Sweden)

    Stephen C Collins

    Full Text Available BACKGROUND: Fragile X syndrome (FXS is caused by loss of function mutations in the FMR1 gene. Trinucleotide CGG-repeat expansions, resulting in FMR1 gene silencing, are the most common mutations observed at this locus. Even though the repeat expansion mutation is a functional null mutation, few conventional mutations have been identified at this locus, largely due to the clinical laboratory focus on the repeat tract. METHODOLOGY/PRINCIPAL FINDINGS: To more thoroughly evaluate the frequency of conventional mutations in FXS-like patients, we used an array-based method to sequence FMR1 in 51 unrelated males exhibiting several features characteristic of FXS but with normal CGG-repeat tracts of FMR1. One patient was identified with a deletion in FMR1, but none of the patients were found to have other conventional mutations. CONCLUSIONS/SIGNIFICANCE: These data suggest that missense mutations in FMR1 are not a common cause of the FXS phenotype in patients who have normal-length CGG-repeat tracts. However, screening for small deletions of FMR1 may be of clinically utility.

  18. The Standard European Vector Architecture (SEVA): a coherent platform for the analysis and deployment of complex prokaryotic phenotypes.

    Science.gov (United States)

    Silva-Rocha, Rafael; Martínez-García, Esteban; Calles, Belén; Chavarría, Max; Arce-Rodríguez, Alejandro; de Las Heras, Aitor; Páez-Espino, A David; Durante-Rodríguez, Gonzalo; Kim, Juhyun; Nikel, Pablo I; Platero, Raúl; de Lorenzo, Víctor

    2013-01-01

    The 'Standard European Vector Architecture' database (SEVA-DB, http://seva.cnb.csic.es) was conceived as a user-friendly, web-based resource and a material clone repository to assist in the choice of optimal plasmid vectors for de-constructing and re-constructing complex prokaryotic phenotypes. The SEVA-DB adopts simple design concepts that facilitate the swapping of functional modules and the extension of genome engineering options to microorganisms beyond typical laboratory strains. Under the SEVA standard, every DNA portion of the plasmid vectors is minimized, edited for flaws in their sequence and/or functionality, and endowed with physical connectivity through three inter-segment insulators that are flanked by fixed, rare restriction sites. Such a scaffold enables the exchangeability of multiple origins of replication and diverse antibiotic selection markers to shape a frame for their further combination with a large variety of cargo modules that can be used for varied end-applications. The core collection of constructs that are available at the SEVA-DB has been produced as a starting point for the further expansion of the formatted vector platform. We argue that adoption of the SEVA format can become a shortcut to fill the phenomenal gap between the existing power of DNA synthesis and the actual engineering of predictable and efficacious bacteria.

  19. Analysis and test research on mechanical performance for steel-concrete composite anchor structure of cable- stayed bridge pylon%斜拉桥索塔钢混组合锚固结构力学性能分析和试验研究

    Institute of Scientific and Technical Information of China (English)

    俞先林; 张奇志

    2009-01-01

    采用自平衡式加载反力架对苏通大桥索塔钢混组合锚固结构进行足尺模型试验,观测模型的应力、裂缝分布和变形情况.采用ANSYS有限元软件对模型进行数值分析.试验和分析结果表明:索孔出口面上方的混凝土表面最易出现裂缝;钢混结合面表现为弯剪共同作用的特性,顶推荷载水平分力主要由钢锚箱结构承担,混凝土亦承担一小部分,竖向分力可全部由剪力钉传递给混凝土承受;单节段模型的有限元计算结果比多节段模型的计算结果偏大,用单节段模型试验结果代表实桥受力状况偏于安全.%Full-scale model test on steel-concrete composite anchor structure for pylon of sutong bridge was done by a self-balanced loading reaction frame to observe the stress,crack distribution and deformation of the model. Also numerical simulation was conducted by the finite element software ANSYS. The results of analysis and test show that cracks most easily occur on concrete surface at upperpart of cable anchor duct export. The steel-concrete contacting surface undertakes mutual action of bending moment and shear. Most horizontal component of pushing load is balanced by steel anchor box and only a small part by concrete,while vertical component of pushing load is all transferred to concrete by shear studs. Since numerical simulation data from single segment model test is larger than that from multi-segmental model test,it's conservative to adopt single segment mode test data instead of actual bridge stress status.

  20. Phenotypic Diversity Analysis of Oil Palm (Elaeis guineensis Jacq.) Germplasm Cameroon Origin Based on Vegetative and Physiologic Characteristic

    OpenAIRE

    Lubis, Mahmud Irfan; Putri, Lollie Agustina P.; Purba, Abdul Razak

    2016-01-01

    Forty seven accessions as a part of of oil palm germplasm Cameroon Origin is planted at Adolina, an estate of PT Perkebunan Nusantara IV were evaluated for the variability based on their early vegetative and physiology characteristics. Mean data from these accessions were analysed by Multivarite Analysis consist of Principal Component Analysis (PCA), revealing their variability and distribution. Results demonstrated that principal component analysis obtained two main components to contribute ...

  1. Chromosomal phenotypes and submicroscopic abnormalities

    Directory of Open Access Journals (Sweden)

    Devriendt Koen

    2004-01-01

    Full Text Available Abstract The finding, during the last decade, that several common, clinically delineated syndromes are caused by submicroscopic deletions or, more rarely, by duplications, has provided a powerful tool in the annotation of the human genome. Since most microdeletion/microduplication syndromes are defined by a common deleted/duplicated region, abnormal dosage of genes located within these regions can explain the phenotypic similarities among individuals with a specific syndrome. As such, they provide a unique resource towards the genetic dissection of complex phenotypes such as congenital heart defects, mental and growth retardation and abnormal behaviour. In addition, the study of phenotypic differences in individuals with the same microdeletion syndrome may also become a treasury for the identification of modifying factors for complex phenotypes. The molecular analysis of these chromosomal anomalies has led to a growing understanding of their mechanisms of origin. Novel tools to uncover additional submicroscopic chromosomal anomalies at a higher resolution and higher speed, as well as the novel tools at hand for deciphering the modifying factors and epistatic interactors, are 'on the doorstep' and will, besides their obvious diagnostic role, play a pivotal role in the genetic dissection of complex phenotypes.

  2. A Cladistic Analysis of Phenotypic Associations with Haplotypes Inferred from Restriction Endonuclease Mapping or DNA Sequencing. V. Analysis of Case/Control Sampling Designs: Alzheimer's Disease and the Apoprotein E Locus

    Science.gov (United States)

    Templeton, A. R.

    1995-01-01

    Present-day associations between haplotypes at a candidate locus and phenotypes exist when phenotypically important mutations occurred at some point during the evolution of the current array of genetic variation. A cladistic statistical design can be defined that focuses power by using the evolutionary history of the candidate DNA region. This paper shows how cladistic methodology is used for the analysis of case/control data, a common sampling design in genetic/disease association studies. A worked example is presented of the associations for sporadic early and late-onset forms of Alzheimer's disease with the 19q13.2 chromosomal region that includes the loci for apoproteins E, CI, and CII. This analysis confirms earlier reports of a strong association of the ApoE &4 allele with Alzheimer's disease but indicates that it is premature to condsider this association causal, particularly for early onset cases. Associations were also found with the &2 allele, as previously reported, and with the 1 allele at the ApoCI locus. However, this analysis indicates that it is inappropriate both statistically and medically to use single markers as risk predictors when haplotype data are available, even when the mutation leading to the marker is identified as having a strong phenotypic association. PMID:7635303

  3. Phenotypic character gradient variation of Melia azedarach

    Institute of Scientific and Technical Information of China (English)

    CHENG Shiming; GU Wanchun

    2007-01-01

    Canonical Correlation Analysis (CCA) was applied on the research data of five geographical-climatic factors and 18 phenotypic characters of 729 trees of 24 populations of Melia azedarach distributed in China.The eigenvalue of the first canonical variable is 0.997 9 (significant at 0.01 level),accounting for 78% of all eigenvalues.A study on the principal component analysis (PCA) was done,taking the first canonical variable coordinate values as the phenotypic character gradient axes (PCGA).The isogram of the PCGA was drawn out with 0.2 contours,which showed a geographical model with a northeast-southwest variation trend of the phenotypic characters of M.azedarach.Meanwhile,the path analysis results show the direct and indirect effects of phenotypic characters with phenotypic character gradient values,which prove that the propagative organs,are steadily changing.

  4. Mutation Analysis of 16 Mucolipidosis II and III Alpha/Beta Chinese Children Revealed Genotype-Phenotype Correlations

    Science.gov (United States)

    Liu, Shuang; Zhang, Weimin; Shi, Huiping; Yao, Fengxia; Wei, Min; Qiu, Zhengqing

    2016-01-01

    Mucolipidosis II and III alpha/beta are autosomal recessive diseases caused by mutations in the GNPTAB gene which encodes the α and β subunits of the N-acetylglucosamine-1-phosphotransferase. Clinically, mucolipidosis II (MLII) is characterized by severe developmental delay, coarse facial features, skeletal deformities, and other systemic involvement. In contrast, MLIII alpha/beta is a much milder disorder, the symptoms of which include progressive joint stiffness, short stature, and scoliosis. To study the relationship between the genotypes and phenotypes of the MLII and MLIII alpha/beta patients, we analyzed the GNPTAB gene in 16 Chinese MLII and MLIII alpha/beta patients. We collected and analyzed the patients’ available clinical data and all showed clinical features typical of MLII or MLIII alpha/beta. Moreover, the activity of several lysosomal enzymes was measured in the plasma and finally the GNPTAB gene was sequenced. We detected 30 mutant alleles out of 32 alleles in our patients. These include 10 new mutations (c.99delC, c.118-1G>A, c.523_524delAAinsG, c.1212C>G, c.2213C>A, c.2345C>T, c.2356C>T, c.2455G>T, c.2821dupA, and c.3136-2A>G) and 5 previously reported mutations (c.1071G>A, c.1090C>T, c.2715+1G>A, c.2550_2554delGAAA, and c.3613C>T). The most frequent mutation was the splicing mutation c.2715+1G>A, which accounted for 28% of the mutations. The majority of the mutations reported in the Chinese patients (57%) were located on exon 13 or in its intronic flanking regions. PMID:27662472

  5. Cellular analysis of the phenotypic correction of the genetically controlled low immune response to the polyproline determinant by macrophages

    International Nuclear Information System (INIS)

    SJL mice are high responders to the polyproline region of poly(Tyr,Glu)-polyPro-polyLys, (T,G)-Pro-L and of poly(Phe,Glu)-polyPro-polyLys, (Phe,G)-Pro-L, whereas DBA/l mice are the low responders to this moiety. The low responsiveness of DBA/l mice to polyproline could be enhanced by immunization with (T,G)-Pro-L 4 days after stimulation of peritoneal cells by thioglycolate. The same effect was observed when DBA/l mice were immunized with 107 syngeneic peritoneal exudate cells (PEC) preincubated in vitro with the immunogen. Similar treatments of SJL mice did not enhance the high response to polyproline, nor did it enhance low responses to other synthetic polypeptides tested. The enhancing effect of PEC on immunocompetent cells was established by transferring graded numbers of spleen cells together with 107 PEC into irradiated syngeneic DBA/l recipients. The effective cell type in the PEC was found to be the macrophage as the same results were observed with the adherent-cell population. Furthermore, the effect was not abolished after in vitro irradiation of PEC with 5000 R or by anti-theta treatment. In vivo irradiation of the PEC donors 2 days before the cells were harvested also did not influence the phenotypic correction of the low responsiveness. Transfer experiments in which graded inocula of either marrow cells or thymocytes from DBA/l donors were transferred into syngeneic recipients in the presence of an excess of the complementary cell type together with PEC indicated that the enhancing effect was reflected in the bone-marrow-cell population only

  6. New structural systems for zero-maintenance pavements. Volume 3: Anchored pavement system designed for Edens Expressway

    Science.gov (United States)

    Saxena, S. K.; Militsopoulos, S. G.

    1980-08-01

    The response of the Edens Expressway subjected to mechanical and environmental loads using the anchored pavement concept is discussed. The mechanical and thermal properties of materials that could be encountered in future reconstruction of Edens Expressway are presented in a consistent form for computer programming. These properties are viewed as typical design values during investigation of pavement response. The behavior of the anchored pavement under induced temperature loads and weakening of subgrade (by thawing action) is clearly demonstrated. The example problem provides the input parameters of materials and loads for the analysis, the generation of finite element mesh, and the results of the analysis.

  7. Distributed localization for anchor-free sensor networks

    Institute of Scientific and Technical Information of China (English)

    Cui Xunxue; Shan Zhiguan; Liu Jianjun

    2008-01-01

    Geographic location of nodes is very useful in a sensor network. Previous localization algorithms assume that there exist some anchor nodes in this kind of network, and then other nodes are estimated to create their coordinates. Once there are not anchors to be deployed, those localization algorithms will be invalidated. Many papers in this field focus on anchor-based solutions. The use of anchors introduces many limitations, since anchors require external equipments such as global position system, cause additional power consumption. A novel positioning algorithm is proposed to use a virtual coordinate system based on a new concept-virtual anchor. It is executed in a distributed fashion according to the connectivity of a node and the measured distances to its neighbors. Both the adjacent member information and the ranging distance result are combined to generate the estimated position of a network, one of which is independently adopted for localization previously. At the position refinement stage the intermediate estimation of a node begins to be evaluated on its reliability for position mutation; thus the positioning optimization process of the whole network is avoided falling into a local optimal solution. Simulation results prove that the algorithm can resolve the distributed localization problem for anchor-free sensor networks, and is superior to previous methods in terms of its positioning capability under a variety of circumstances.

  8. 自锚式悬索桥钢混组合主梁施工预拱度分析%Construction pre-camber analysis on steel-concrete composite beam of self-anchored suspension bridge

    Institute of Scientific and Technical Information of China (English)

    孙永明; 何晓东; 李文东

    2015-01-01

    对自锚式悬索桥的主梁施工方法进行了总结与评价,指出顶推施工的钢混组合主梁即使在均匀成桥吊杆的作用下,其成桥线形仍会在最大跨临时墩范围内发生局部凹陷的情况,而主梁施工预拱度也不能采取圆曲线或二次抛物线在各跨径内统一布置。鉴于此,本文基于有限单元法对一座自锚式悬索桥的施工过程进行正装模拟分析,计算结果表明,钢混组合梁截面性质改变是引起主梁成桥线形存在凹陷的本质原因;同时将成桥状态的主梁简化为承受竖向均布荷载和梁端集中水平力作用的三跨连续梁结构,并采用力法推导了各跨跨中位置竖向位移的简化计算公式;经算例验证,本文提出的施工预拱度简化计算公式能够有效计入主梁截面性质改变对主梁成桥线形的影响,较准确地预测出主梁累计竖向位移,其计算精度满足工程需求,而本文的研究结论将对同类桥型的主梁施工预拱度设计有较强的指导意义和参考价值。%This paper summarized and evaluated the main beam construction methods of self‐anchored suspension bridge ,pointed out that the main‐beam line would have a local depression between the largest span temporary pier when the steel‐concrete composite beams were constructed by the incremental launching construction method ,even if the main beam were withstand uniform boom‐forces ,moreover , the construction pre‐camber curve of the main girder could not be arranged as a circle curve or quadratic parabola within the entire span .In view of this ,the entire construction process of a self‐anchored suspen‐sion bridge was analyzed by the finite element method ,The results showed that the cross‐section proper‐ty changes of steel‐concrete composite beam were the nature reason of the local depression on the main‐beam line;T he completed main beam w as simplified into a three‐span continuous

  9. Effect of GBA Mutations on Phenotype of Parkinson’s Disease: A Study on Chinese Population and a Meta-Analysis

    Directory of Open Access Journals (Sweden)

    Yuan Zhang

    2015-01-01

    Full Text Available GBA has been identified as a genetic risk factor for PD. Whether the clinical manifestations of PD patients with or without GBA mutations are different has still not reached a consensus. We firstly detected the GBA mutation L444P in 1147 Chinese PD patients and simultaneously evaluated their corresponding clinical data. Then we compared the phenotypes between 646 PD patients with GBA mutations and 10344 PD patients without GBA mutations worldwide through meta-analysis. Through the method of meta-analysis, there was significant difference in age at onset (MD = −3.10 [95% CI: −4.88, −1.32], bradykinesia as an initial symptom (OR = 1.49 [95% CI: 1.15, 1.94], having family history (OR = 1.50 [95% CI: 1.18, 1.91], and dementia (OR = 3.21 [95% CI: 1.97, 5.24] during the comparison between PD patients with and without GBA mutations. While, in the aspect of tremor as an initial symptom (OR = 0.81 [95% CI: 0.64, 1.03], the severity of motor symptoms such as H-Y (MD = 0.06 [95% CI: −0.06, 0.17] and UPDRS-III (MD = 1.61 [95% CI: −0.65, 3.87] and having dyskinesia (OR = 1.60 [95% CI: 0.90, 2.84] during the comparison between the two groups revealed no statistical differences. Our results suggested that the phenotypes of PD patients with GBA mutations are different from GBA noncarriers.

  10. Rapid phenotypic and genomic change in response to therapeutic pressure in prostate cancer inferred by high content analysis of single circulating tumor cells.

    Directory of Open Access Journals (Sweden)

    Angel E Dago

    Full Text Available Timely characterization of a cancer's evolution is required to predict treatment efficacy and to detect resistance early. High content analysis of single Circulating Tumor Cells (CTCs enables sequential characterization of genotypic, morphometric and protein expression alterations in real time over the course of cancer treatment. This concept was investigated in a patient with castrate-resistant prostate cancer progressing through both chemotherapy and targeted therapy. In this case study, we integrate across four timepoints 41 genome-wide copy number variation (CNV profiles plus morphometric parameters and androgen receptor (AR protein levels. Remarkably, little change was observed in response to standard chemotherapy, evidenced by the fact that a unique clone (A, exhibiting highly rearranged CNV profiles and AR+ phenotype was found circulating before and after treatment. However, clinical response and subsequent progression after targeted therapy was associated with the drastic depletion of clone A, followed by the sequential emergence of two distinct CTC sub-populations that differed in both AR genotype and expression phenotype. While AR- cells with flat or pseudo-diploid CNV profiles (clone B were identified at the time of response, a new tumor lineage of AR+ cells (clone C with CNV altered profiles was detected during relapse. We showed that clone C, despite phylogenetically related to clone A, possessed a unique set of somatic CNV alterations, including MYC amplification, an event linked to hormone escape. Interesting, we showed that both clones acquired AR gene amplification by deploying different evolutionary paths. Overall, these data demonstrate the timeframe of tumor evolution in response to therapy and provide a framework for the multi-scale analysis of fluid biopsies to quantify and monitor disease evolution in individual patients.

  11. A biospectroscopic analysis of human prostate tissue obtained from different time periods points to a trans-generational alteration in spectral phenotype.

    Science.gov (United States)

    Theophilou, Georgios; Lima, Kássio M G; Briggs, Matthew; Martin-Hirsch, Pierre L; Stringfellow, Helen F; Martin, Francis L

    2015-01-01

    Prostate cancer is the most commonly-diagnosed malignancy in males worldwide; however, there is marked geographic variation in incidence that may be associated with a Westernised lifestyle. We set out to determine whether attenuated total reflection Fourier-transform infrared (ATR-FTIR) or Raman spectroscopy combined with principal component analysis-linear discriminant analysis or variable selection techniques employing genetic algorithm or successive projection algorithm could be utilised to explore differences between prostate tissues from differing years. In total, 156 prostate tissues from transurethral resection of the prostate procedures for benign prostatic hyperplasia from 1983 to 2013 were collected. These were distributed to form seven categories: 1983-1984 (n = 20), 1988-1989 (n = 25), 1993-1994 (n = 21), 1998-1999 (n = 21), 2003-2004 (n = 21), 2008-2009 (n = 20) and 2012-2013 (n = 21). Ten-μm-thick tissue sections were floated onto Low-E (IR-reflective) slides for ATR-FTIR or Raman spectroscopy. The prostate tissue spectral phenotype altered in a temporal fashion. Examination of the two categories that are at least one generation (30 years) apart indicated highly-significant segregation, especially in spectral regions containing DNA and RNA bands (≈1,000-1,490 cm(-1)). This may point towards alterations that have occurred through genotoxicity or through epigenetic modifications. Immunohistochemical studies for global DNA methylation supported this. This study points to a trans-generational phenotypic change in human prostate. PMID:26310632

  12. 通货膨胀目标制在中国的适用性分析——基于名义锚视角%The Analysis on the Applicability of Inflation Targeting in China: Based on Nominal Anchor

    Institute of Scientific and Technical Information of China (English)

    赵健

    2015-01-01

    In view of the changes in China's commodity prices over the years and the practice of price control, it has become the focus in economic regulation to guarantee the stability of prices, in which the inhibition of inflation has played a significant role. The existing double nominal anchors presents such contradictions and conflicts that the reform and improvement of the existing objective rules tends to be imperative. However, currently it is not a mature time to adopt inflation targeting considering the existing conditions in China. The reasons are: inflation is an important goal of monetary policy, but not the only one; the immature calculation and prediction of inflation rate; the incomplete and imperfect market mechanism and financial system; a lack of independence in PBOC; the low transparency of policy information.%从中国物价历年变动和对物价的治理实践来看,稳定物价是我国经济工作的重点,治理通货膨胀对经济的稳定性起到了很大作用.现有双重名义锚存在矛盾和冲突,改革和完善现有目标规则势在必行.但从中国现有条件来看,目前还不是采用通胀目标制的成熟时机.原因如下:通货膨胀是货币政策的重要目标,但不是唯一目标;对通货膨胀率的测算和预测还不是很成熟;市场机制和金融体系不够完善;中国人民央行的独立性不够;政策信息的透明度不高.

  13. Mutations in PGAP3 impair GPI-anchor maturation, causing a subtype of hyperphosphatasia with mental retardation.

    Science.gov (United States)

    Howard, Malcolm F; Murakami, Yoshiko; Pagnamenta, Alistair T; Daumer-Haas, Cornelia; Fischer, Björn; Hecht, Jochen; Keays, David A; Knight, Samantha J L; Kölsch, Uwe; Krüger, Ulrike; Leiz, Steffen; Maeda, Yusuke; Mitchell, Daphne; Mundlos, Stefan; Phillips, John A; Robinson, Peter N; Kini, Usha; Taylor, Jenny C; Horn, Denise; Kinoshita, Taroh; Krawitz, Peter M

    2014-02-01

    Glycosylphophatidylinositol (GPI)-anchored proteins play important roles in many biological processes, and mutations affecting proteins involved in the synthesis of the GPI anchor are reported to cause a wide spectrum of intellectual disabilities (IDs) with characteristic additional phenotypic features. Here, we describe a total of five individuals (from three unrelated families) in whom we identified mutations in PGAP3, encoding a protein that is involved in GPI-anchor maturation. Three siblings in a consanguineous Pakistani family presented with profound developmental delay, severe ID, no speech, psychomotor delay, and postnatal microcephaly. A combination of autozygosity mapping and exome sequencing identified a 13.8 Mb region harboring a homozygous c.275G>A (p.Gly92Asp) variant in PGAP3 region 17q11.2-q21.32. Subsequent testing showed elevated serum alkaline phosphatase (ALP), a GPI-anchored enzyme, in all three affected children. In two unrelated individuals in a cohort with developmental delay, ID, and elevated ALP, we identified compound-heterozygous variants c.439dupC (p.Leu147Profs(∗)16) and c.914A>G (p.Asp305Gly) and homozygous variant c.314C>G (p.Pro105Arg). The 1 bp duplication causes a frameshift and nonsense-mediated decay. Further evidence supporting pathogenicity of the missense mutations c.275G>A, c.314C>G, and c.914A>G was provided by the absence of the variants from ethnically matched controls, phylogenetic conservation, and functional studies on Chinese hamster ovary cell lines. Taken together with recent data on PGAP2, these results confirm the importance of the later GPI-anchor remodelling steps for normal neuronal development. Impairment of PGAP3 causes a subtype of hyperphosphatasia with ID, a congenital disorder of glycosylation that is also referred to as Mabry syndrome. PMID:24439110

  14. Neurostimulation leads, intrathecal catheters and anchoring devices evolution

    Directory of Open Access Journals (Sweden)

    Laura Demartini

    2015-03-01

    Full Text Available Many scientific studies highlight the usefulness of spinal cord stimulation and intrathecal therapy for the management of chronic pain syndromes resistant to pharmacological or less invasive interventional therapies. One of the possible complications of these techniques, reported in literature, is migration of the lead or catheter; thus the use of an anchoring system is considered mandatory. Every company that produces devices for neurostimulation or neuromodulation provides various anchoring devices evolved over time. In the study, the authors discuss about the most common anchoring devices based on their clinical experience.

  15. Longitudinal analysis of the behavioral phenotype in a novel transgenic rat model of early stages of Alzheimer's disease

    Science.gov (United States)

    Galeano, Pablo; Martino Adami, Pamela V.; Do Carmo, Sonia; Blanco, Eduardo; Rotondaro, Cecilia; Capani, Francisco; Castaño, Eduardo M.; Cuello, A. Claudio; Morelli, Laura

    2014-01-01

    Intraneuronal accumulation of amyloid β (iAβ) has been linked to mild cognitive impairment that may precede Alzheimer's disease (AD) onset. This neuropathological trait was recently mimicked in a novel animal model of AD, the hemizygous transgenic McGill-R-Thy1-APP (Tg+/−) rat. The characterization of the behavioral phenotypes in this animal model could provide a baseline of efficacy for earlier therapeutic interventions. The aim of the present study was to undertake a longitudinal study of Aβ accumulation and a comprehensive behavioral evaluation of this transgenic rat model. We assessed exploratory activity, anxiety-related behaviors, recognition memory, working memory, spatial learning and reference memory at 3, 6, and 12 months of age. In parallel, we measured Aβ by ELISA, Western blots and semiquantitative immunohistochemistry in hippocampal samples. SDS-soluble Aβ peptide accumulated at low levels (~9 pg/mg) without differences among ages. However, Western blots showed SDS-resistant Aβ oligomers (~30 kDa) at 6 and 12 months, but not at 3 months. When compared to wild-type (WT), male Tg+/− rats exhibited a spatial reference memory deficit in the Morris Water Maze (MWM) as early as 3 months of age, which persisted at 6 and 12 months. In addition, Tg+/− rats displayed a working memory impairment in the Y-maze and higher anxiety levels in the Open Field (OF) at 6 and 12 months of age, but not at 3 months. Exploratory activity in the OF was similar to that of WT at all-time points. Spatial learning in the MWM and the recognition memory, as assessed by the Novel Object Recognition Test, were unimpaired at any time point. The data from the present study demonstrate that the hemizygous transgenic McGill-R-Thy1-APP rat has a wide array of behavioral and cognitive impairments from young adulthood to middle-age. The low Aβ burden and early emotional and cognitive deficits in this transgenic rat model supports its potential use for drug discovery purposes in

  16. Analysis of common PTPN1 gene variants in type 2 diabetes, obesity and associated phenotypes in the French population

    Directory of Open Access Journals (Sweden)

    Marre Michel

    2006-05-01

    Full Text Available Abstract Background The protein tyrosine phosphatase-1B, a negative regulator for insulin and leptin signalling, potentially modulates glucose and energy homeostasis. PTP1B is encoded by the PTPN1 gene located on chromosome 20q13 showing linkage with type 2 diabetes (T2D in several populations. PTPN1 gene variants have been inconsistently associated with T2D, and the aim of our study was to investigate the effect of PTPN1 genetic variations on the risk of T2D, obesity and on the variability of metabolic phenotypes in the French population. Methods Fourteen single nucleotide polymorphisms (SNPs spanning the PTPN1 locus were selected from previous association reports and from HapMap linkage disequilibrium data. SNPs were evaluated for association with T2D in two case-control groups with 1227 cases and 1047 controls. Association with moderate and severe obesity was also tested in a case-control study design. Association with metabolic traits was evaluated in 736 normoglycaemic, non-obese subjects from a general population. Five SNPs showing a trend towards association with T2D, obesity or metabolic parameters were investigated for familial association. Results From 14 SNPs investigated, only SNP rs914458, located 10 kb downstream of the PTPN1 gene significantly associated with T2D (p = 0.02 under a dominant model; OR = 1.43 [1.06–1.94] in the combined sample set. SNP rs914458 also showed association with moderate obesity (allelic p = 0.04; OR = 1.2 [1.01–1.43]. When testing for association with metabolic traits, two strongly correlated SNPs, rs941798 and rs2426159, present multiple consistent associations. SNP rs2426159 exhibited evidence of association under a dominant model with glucose homeostasis related traits (p = 0.04 for fasting insulin and HOMA-B and with lipid markers (0.02 = p = 0.04. Moreover, risk allele homozygotes for this SNP had an increased systolic blood pressure (p = 0.03. No preferential transmission of alleles was observed

  17. Field contrast test and mechanism analysis on anchorage performance of anti-floating anchors with two different materials%两种不同材质抗浮锚杆锚固性能的现场对比试验研究与机理分析

    Institute of Scientific and Technical Information of China (English)

    白晓宇; 张明义; 闫楠

    2015-01-01

    为深入研究中风化花岗岩中以全螺纹GFRP筋材为杆体的全长黏结抗浮锚杆锚固机理及破坏机制,进行了螺纹GFRP抗浮锚杆与螺纹钢抗浮锚杆现场拉拔试验。试验结果表明,GFRP抗浮锚杆的极限抗拔承载力高于钢筋抗浮锚杆;相同荷载水平,相同位置处GFRP锚杆的轴力大于钢筋锚杆,钢筋锚杆轴力沿深度衰减的速率比GFRP锚杆快;GFRP锚杆剪应力峰值点较钢筋锚杆更明显,钢筋锚杆的剪应力比GFRP锚杆发挥早,GFRP锚杆的峰值剪应力比钢筋锚杆大;就砂浆与围岩界面的平均黏结强度而言,GFRP抗浮锚杆高于钢筋抗浮锚杆;GFRP抗浮锚杆以杆体材料剪切破坏为主,而螺纹钢锚杆的破坏是锚固体与围岩界面产生剪切滑移破坏。%The pull-out contrast tests of threaded GFRP anti-floating anchor and threaded steel anchor rod were conducted to study the anchoring mechanism and the failure mechanism of full-length bonding anti-floating anchor in the moderately weathered granite. The following conclusion can be drawn:(1) The ultimate anti-lifting bearing capacity of GFRP anti-floating anchor is higher than that of steel anchor rod. (2) The axial force of GFRP anti-floating anchor is greater than that of steel anchor rod at the same loading level and the same position, and the axial force in steel anchor rod attenuates quickly along the depth compared to that of GFRP anchor rod. (3) The shear stress peak value point of GFRP anchor rod is more evident than that of steel anchor rod. However, the shear stress of steel anchor rod comes into play earlier than GFRP anchor, and the peak shear stress of GFRP anchor is larger than steel anchor rod. ( 4 ) The average bond strength of GFRP anti-floating anchor is higher than that of steel anti-floating anchor in terms of the mortar-rock interface. (5) GFRP anti-floating anchors mainly exhibit shear failure and the shear slip failure may occur at the anchorage section if the

  18. The Effect of the Trabecular Microstructure on the Pullout Strength of Suture Anchors

    OpenAIRE

    Yakacki, Christopher M.; Poukalova, Mariya; Guldberg, Robert E.; Lin, Angela; Saing, Minn; Gillogly, Scott; Gall, Ken

    2010-01-01

    This study investigates how the microstructural properties of trabecular bone affect suture anchor performance. Seven fresh-frozen humeri were tested for pullout strength with a 5 mm Arthrex Corkscrew in the greater tuberosity, lesser tuberosity, and humeral head. Micro-computed tomography analysis was performed in the three regions of interest directly adjacent to individual pullout experiments. The morphometric properties of bone mineral density (BMD), structural model index (SMI), trabecul...

  19. Identification of a lipid-anchored heparan sulfate proteoglycan in Schwann cells

    OpenAIRE

    1990-01-01

    Schwann cells synthesize both hydrophobic and peripheral cell surface heparan sulfate proteoglycans (HSPGs). Previous analysis of the kinetics of radiolabeling suggested the peripheral HSPGs are derived from the membrane-anchored forms (Carey, D., and D. Evans. 1989. J. Cell Biol. 108:1891-1897). Peripheral cell surface HSPGs were purified from phytic acid extracts of cultured neonatal rat sciatic nerve Schwann cells by anion exchange, gel filtration, and laminin-affinity chromatography. Appr...

  20. INFLATION TARGETING AND THE ANCHORING OF INFLATION EXPECTATIONS IN THE WESTERN HEMISPHERE

    OpenAIRE

    Refet S. Gürkaynak; Levin, Andrew T.; Andrew N. Marder; Eric T. Swanson

    2006-01-01

    We investigate the extent to which long-run inflation expectations are well anchored in three Western Hemisphere countries - Canada, Chile, and the United States - using a high-frequency event-study analysis. Specifically, we use daily data on far-ahead forward inflation compensation - the difference between forward rates on nominal and inflation-indexed bonds - as an indicator of financial market perceptions of inflation risk and the expected level of inflation at long horizons. For the Unit...

  1. Material Testing for Robotic Omnidirectional Anchor

    Science.gov (United States)

    Witkoe, Kevin S.

    2012-01-01

    To successfully explore near-Earth Asteroids the question of mobility emerges as the key issue for any robotic mission. When small bodies have extremely low escape velocities, traditional methods, such as wheels, would send the robot hurtling off of the asteroid's surface. To solve this problem, JPL has developed an omni-directional anchoring mechanism for use in microgravity that utilizes microspine technology. These microspines are placed in circular arrays with 16 independent carriages biasing the surface of the rock. The asperities in the surface allow the gripper to hold nearly 150N in all directions. While the gripper has been proven successful on consolidated rocks, it had yet to be tested on a variety of other surfaces that are suspected to separate the large boulders on an asteroid. Since asteroid surfaces vary widely, from friable rocks to lose ponds of regolith, the gripper was tested in a large variety of materials such as, bonded pumice, sand, gravel, and loose rocks. The forces are applied tangent, at 45 degrees, and normal to the surface of the material. The immediate results from this experiment will give insight into the gripper's effectiveness across the wide spectrum of materials found on asteroids.

  2. Blue-light-induced rapid chloroplast de-anchoring in Vallisneria epidermal cells.

    Science.gov (United States)

    Sakai, Yuuki; Inoue, Shin-ichiro; Harada, Akiko; Shimazaki, Ken-Ichiro; Takagi, Shingo

    2015-01-01

    In the outer periclinal cytoplasm of leaf epidermal cells of an aquatic angiosperm Vallisneria, blue light induces "chloroplast de-anchoring", a rapid decline in the resistance of chloroplasts against centrifugal force. Chloroplast de-anchoring is known induced within 1 min of irradiation with high-fluence-rate blue light specifically, preceding the commencement of chloroplasts migration toward the anticlinal cytoplasm. However, its regulatory mechanism has remained elusive, although pharmacological analysis suggested that a calcium release from intracellular calcium stores is necessary for the response. In search of the responsible photoreceptors, immunoblotting analysis using antibodies against phototropins demonstrated that cross-reactive polypeptides of 120-kDa exist in the plasma-membrane fraction prepared from the leaves. In vitro phosphorylation analysis revealed that 120-kDa polypeptides were phosphorylated by exposure to blue light in a fluence-dependent manner. The blue-light-induced phosphorylation activity was sensitive to a Ser/Thr kinase inhibitor, staurosporine, and unusually was retained at a high level for a long time in darkness. Furthermore, phototropin gene homologs (Vallisneria PHOTOTROPIN1 and PHOTOTROPIN2) expressed in leaves were isolated. We propose that calcium-regulated chloroplast de-anchoring, possibly mediated by phototropins, is an initial process of the blue-light-induced avoidance response of chloroplasts in Vallisneria. PMID:25231366

  3. Use of Phenotypic and MAS Selection Based on Bulk Segregant Analysis to Reveal the Genetic Variability Induced by Artificial Hybridization in Apple

    Directory of Open Access Journals (Sweden)

    Radu E. SESTRAS

    2009-06-01

    Full Text Available Phenotypic selection in apple seedling populations (F1, derived from semidiallel hybridizations between genitors with different peculiarities (Florina and Liberty, resistant to apple scab attack; Starkrimson and Golden spur, with spur ideotype was completed with Marker Assisted Selection (MAS, based on Bulk Segregant Analysis (BSA technique. Molecular analyses performing by Bulk Segregant Analysis were intended to indentifying markers for scab resistance, powdery mildew resistance and architectural tree structure (ideotype with bulks of five to six plants per groups, and testing the bulks with RAPD polymorphic primers. The polymorphic bands between the bulks were mostly associated to apple scab resistance genes. Concerning powdery mildew resistance and architectural tree structure analysis the results are inconclusive. Although it seems that the primer 54 showed a polymorphic band in a resistant to powdery mildew hybrid, which is missing in the sensitive hybrids, the result is only apparently favourable since this band is present in both parental forms (Starkrimson, tolerant to powdery mildew and Liberty, relative susceptible. Molecular profile of the standard ideotype and spur ideotype, resulted in hybrids originated in standard parental form (Florina and spur parental form (Golden spur, were usually monomorphic. Genetic association among the parental molecular polymorphism for scab resistance and the other two important traits (powdery mildew resistance and ideotype, was not conclusive.

  4. The Anchor Scheme Analysis on CFRP Plate Reinforcing Multi-function Bridge in High Environmental Temperature%高温作用下CFRP板加固多功能箱梁桥锚固方案分析

    Institute of Scientific and Technical Information of China (English)

    袁鑫; 张继文; 宋守坛

    2012-01-01

    孟加拉邦戈邦都大桥在频繁的旱灾、热带气旋等多种气候灾害影响下,由于表面温度应力导致桥面层纵向开裂,初步设计对桥面裂缝灌注环氧树脂进行修复,然后在桥面横向粘贴碳纤维板约束纵向裂缝发展;对桥面进行找平,设置隔热和防水层后,铺设5cm厚的玛蹄脂沥青耐磨层.目前,在桥面板大面积粘贴CFRP板并铺设玛蹄脂沥青层,为了研究铺设玛蹄脂沥青层的高温作用对CFRP板加固多功能箱梁桥的效果,根据设计方案进行6种不同方案锚固试验,分析高温环境下CFRP板加固多功能箱梁桥的合理锚固方案.%In the influence of various climate disasters, such as frequent drought and tropical cyclone, the surface temperature stress leads to longitudinal surface crack of Bangabandhu Bridge. The initial design was to fill the crack with grouting epoxy resin, then attach CFRP plate in transverse direction to restrain the further development of longitudinal crack. At last, the bridge deck was flattened, and covered with insulating layer, waterproof layer and 5cm thick Matrix Asphalt ( SMA). It was the first time in the world that large area of CFRP plate was glued on bridge panel and then covered by the construction of matrix asphalt layer. In order to investigate the effect of high temperature during the application of asphalt layer to the CFRP reinforcement, six different anchor schemes were tested according to the design scheme to find out the reasonable anchorage scheme for CFRP plate strengthening multi-function box girder bridge in high environmental temperature.

  5. Genetic and phenotypic analysis of Vibrio cholerae non-O1, non-O139 isolated from German and Austrian patients.

    Science.gov (United States)

    Schirmeister, F; Dieckmann, R; Bechlars, S; Bier, N; Faruque, S M; Strauch, E

    2014-05-01

    Vibrio cholerae belonging to the non-O1, non-O139 serogroups are present in the coastal waters of Germany and in some German and Austrian lakes. These bacteria can cause gastroenteritis and extraintestinal infections, and are transmitted through contaminated food and water. However, non-O1, non-O139 V. cholerae infections are rare in Germany. We studied 18 strains from German and Austrian patients with diarrhea or local infections for their virulence-associated genotype and phenotype to assess their potential for infectivity in anticipation of possible climatic changes that could enhance the transmission of these pathogens. The strains were examined for the presence of genes encoding cholera toxin and toxin-coregulated pilus (TCP), as well as other virulence-associated factors or markers, including hemolysins, repeats-in-toxin (RTX) toxins, Vibrio seventh pandemic islands VSP-1 and VSP-2, and the type III secretion system (TTSS). Phenotypic assays for hemolysin activity, serum resistance, and biofilm formation were also performed. A dendrogram generated by incorporating the results of these analyses revealed genetic differences of the strains correlating with their clinical origin. Non-O1, non-O139 strains from diarrheal patients possessed the TTSS and/or the multifunctional autoprocessing repeats-in-toxin (MARTX) toxin, which were not found in the strains from ear or wound infections. Routine matrix-assisted laser desorption/ionization (MALDI-TOF) mass spectrometry (MS) analysis of all strains provided reliable identification of the species but failed to differentiate between strains or clusters. The results of this study indicate the need for continued surveillance of V. cholerae non-O1, non-O139 in Germany, in view of the predicted increase in the prevalence of Vibrio spp. due to the rise in surface water temperatures.

  6. Phenotypic Characterization of Toxic Compound Effects on Liver Spheroids Derived from iPSC Using Confocal Imaging and Three-Dimensional Image Analysis.

    Science.gov (United States)

    Sirenko, Oksana; Hancock, Michael K; Hesley, Jayne; Hong, Dihui; Cohen, Avrum; Gentry, Jason; Carlson, Coby B; Mann, David A

    2016-09-01

    Cell models are becoming more complex to better mimic the in vivo environment and provide greater predictivity for compound efficacy and toxicity. There is an increasing interest in exploring the use of three-dimensional (3D) spheroids for modeling developmental and tissue biology with the goal of accelerating translational research in these areas. Accordingly, the development of high-throughput quantitative assays using 3D cultures is an active area of investigation. In this study, we have developed and optimized methods for the formation of 3D liver spheroids derived from human iPS cells and used those for toxicity assessment. We used confocal imaging and 3D image analysis to characterize cellular information from a 3D matrix to enable a multi-parametric comparison of different spheroid phenotypes. The assay enables characterization of compound toxicities by spheroid size (volume) and shape, cell number and spatial distribution, nuclear characterization, number and distribution of cells expressing viability, apoptosis, mitochondrial potential, and viability marker intensities. In addition, changes in the content of live, dead, and apoptotic cells as a consequence of compound exposure were characterized. We tested 48 compounds and compared induced pluripotent stem cell (iPSC)-derived hepatocytes and HepG2 cells in both two-dimensional (2D) and 3D cultures. We observed significant differences in the pharmacological effects of compounds across the two cell types and between the different culture conditions. Our results indicate that a phenotypic assay using 3D model systems formed with human iPSC-derived hepatocytes is suitable for high-throughput screening and can be used for hepatotoxicity assessment in vitro. PMID:27494736

  7. A forward phenotypically driven unbiased genetic analysis of host genes that moderate herpes simplex virus virulence and stromal keratitis in mice.

    Directory of Open Access Journals (Sweden)

    Richard L Thompson

    Full Text Available Both viral and host genetics affect the outcome of herpes simplex virus type 1 (HSV-1 infection in humans and experimental models. Little is known about specific host gene variants and molecular networks that influence herpetic disease progression, severity, and episodic reactivation. To identify such host gene variants we have initiated a forward genetic analysis using the expanded family of BXD strains, all derived from crosses between C57BL/6J and DBA/2J strains of mice. One parent is highly resistant and one highly susceptible to HSV-1. Both strains have also been fully sequenced, greatly facilitating the search for genetic modifiers that contribute to differences in HSV-1 infection. We monitored diverse disease phenotypes following infection with HSV-1 strain 17syn+ including percent mortality (herpes simplex encephalitis, HSE, body weight loss, severity of herpetic stromal keratitis (HSK, spleen weight, serum neutralizing antibody titers, and viral titers in tear films in BXD strains. A significant quantitative trait locus (QTL on chromosome (Chr 16 was found to associate with both percent mortality and HSK severity. Importantly, this QTL maps close to a human QTL and the gene proposed to be associated with the frequency of recurrent herpetic labialis (cold sores. This suggests that a single host locus may influence these seemingly diverse HSV-1 pathogenic phenotypes by as yet unknown mechanisms. Additional suggestive QTLs for percent mortality were identified--one on Chr X that is epistatically associated with that on Chr 16. As would be anticipated the Chr 16 QTL also modulated weight loss, reaching significance in females. A second significant QTL for maximum weight loss in male and female mice was mapped to Chr 12. To our knowledge this is the first report of a host genetic locus that modulates the severity of both herpetic disease in the nervous system and herpetic stromal keratitis.

  8. The utilisation of a career conversation framework based on Schein’s career anchors model

    Directory of Open Access Journals (Sweden)

    Magda Bezuidenhout

    2013-01-01

    Full Text Available Orientation: This  study  constituted  and  reported  on  the  outcomes  of  a  structured  career conversation  framework  based  on  Schein’s  eight  career  anchors  in  an  open  distance  and e-learning (ODeL university in South Africa.Research purpose: The purpose of the research was to report on the utilisation of a structured career conversation framework based on Schein’s career anchors model.Motivation for the study: The rationale for the study was the paucity of studies investigating career anchors in South Africa’s multicultural organisational context.Research design, approach and method: A quantitative approach was adopted in the study. The population consisted of 4200 employees at a university in South Africa. Statistical analysis was performed using one-way analysis of variance (ANOVA as well as a Scheffe post hoc test.Main  findings: The  findings  of  this  study  suggest  that  career  conversation  has  a  dynamic nature (i.e. it changes over a period of time. Consequently, career development interventions in the workplace need to approach the workforce holistically.Practical/managerial implications: The findings and results will assist managers, practitioners and  career  development  specialists  in  the  practical  implementation  of  the  career  anchor concept.Contribution/value-add: The career conversation framework based on Schein’s career anchors has expanded the existing theory to find the right balance between career conversations and career anchors to keep people motivated to perform optimally in an organisation.

  9. Liquid crystal director fluctuations and surface anchoring by molecular simulation

    OpenAIRE

    Andrienko, D.; Germano, G; Allen, M. P.

    2002-01-01

    We propose a simple and reliable method to measure the liquid crystal surface anchoring strength by molecular simulation. The method is based on the measurement of the long-range fluctuation modes of the director in confined geometry. As an example, molecular simulations of a liquid crystal in slab geometry between parallel walls with homeotropic anchoring have been carried out using the Monte Carlo technique. By studying different slab thicknesses, we are able to calculate separately the pos...

  10. Mechanical behaviour of adhesive anchors installed in concrete

    OpenAIRE

    Zavliaris, K.D.

    1990-01-01

    The thesis presents the main characteristics of the mechanical behaviour of adhesive anchors installed in concrete. They are the mechanisms of failure, the relationship between applied pull-out'loadand slip of the anchor and the stresses and strains in each of the three components (steel-resin'-concrete). The study is-primarily-experimental--but theoretical and finite element analyses are also included. These main characteristics are dependent on the'adhesion and wetting phenomena across the ...

  11. Transosseous Acetabular Labral Repair as an Alternative to Anchors

    OpenAIRE

    Pérez-Carro, Luis; Cabello, Andres Gonzalez; Rakha, Mohamed Ibrahim; Patnaik, Sarthak; Centeno, Elias; Miranda, Victor; Fernández, Ana Alfonso

    2015-01-01

    Labral tears are the most common pathology in patients undergoing hip arthroscopy and the most common cause of mechanical hip symptoms. Labral repair techniques have been described in the literature using suture anchors placed as close as possible to the acetabular rim without penetrating the articular surface. Optimal surgical technique for labral repair is very important, and an inappropriate entry point and guide angulation may lead to intra-articular penetration of the anchor, chondral da...

  12. The Effect of Anchoring Sutures on Medicinal Leech Mortality

    OpenAIRE

    Davila, Victor J.; Hoppe, Ian C.; Landi, Rocco; Ciminello, Frank S.

    2009-01-01

    Objective: The implementation of leech therapy for surgical flaps is not always logistically easy or comfortable for patients or healthcare providers. We examine different methods of placing sutures in the medicinal leech, Hirudo medicinalis, to make the implementation of leech therapy easier. Methods: Sixteen leeches were randomly divided into 3 groups: a control group, a deep anchoring suture group, and a superficial anchoring suture group. The leeches were observed to determine if either o...

  13. Anchor stud monotonic and cyclic shear tests. Final report

    International Nuclear Information System (INIS)

    In a prestressed concrete reactor vessel (PCRV), the main cavity liner and other cavity liners with large diameter/thickness (D/t) ratios are anchored to the concrete by anchor studs. These anchor studs are subject to shear loading resulting from prestressing, pressurization, temperature, and creep of the PCRV. The test program discussed in this report consists of both monotonic and cyclic testing of models simulating the prototype anchor stud/concrete assembly. The tests determined the shear stiffness characteristics of the 3/4-in.-diameter, one-piece Nelson anchor stud embedded in concrete and established its low-cycle fatigue life under displacement-controlled loading. The previously obtained results of Phase I and Phase II tests on two-piece anchor studs, along with high-cyclic fatigue data taken from the literature, are discussed and are plotted with the current, Phase III, results to form a displacement versus cycles to failure curve covering a useful range of design applications

  14. Poor anchoring limits dyslexics' perceptual, memory, and reading skills.

    Science.gov (United States)

    Oganian, Yulia; Ahissar, Merav

    2012-07-01

    The basic deficits underlying the severe and persistent reading difficulties in dyslexia are still highly debated. One of the major topics of debate is whether these deficits are language specific, or affect both verbal and non-verbal stimuli. Recently, Ahissar and colleagues proposed the "anchoring-deficit hypothesis" (Ahissar, Lubin, Putter-Katz, & Banai, 2006), which suggests that dyslexics have a general difficulty in automatic extraction of stimulus regularities from auditory inputs. This hypothesis explained a broad range of dyslexics' verbal and non-verbal difficulties. However, it was not directly tested in the context of reading and verbal memory, which poses the main stumbling blocks to dyslexics. Here we assessed the abilities of adult dyslexics to efficiently benefit from ("anchor to") regularities embedded in repeated tones, orally presented syllables, and written words. We also compared dyslexics' performance to that of individuals with attention disorder (ADHD), but no reading disability. We found an anchoring effect in all groups: all gained from stimulus repetition. However, in line with the anchoring-deficit hypothesis, controls and ADHD participants showed a significantly larger anchoring effect in all tasks. This study is the first that directly shows that the same domain-general deficit, poor anchoring, characterizes dyslexics' performance in perceptual, working memory and reading tasks.

  15. Evaluation of mitral valve replacement anchoring in a phantom

    Science.gov (United States)

    McLeod, A. Jonathan; Moore, John; Lang, Pencilla; Bainbridge, Dan; Campbell, Gordon; Jones, Doug L.; Guiraudon, Gerard M.; Peters, Terry M.

    2012-02-01

    Conventional mitral valve replacement requires a median sternotomy and cardio-pulmonary bypass with aortic crossclamping and is associated with significant mortality and morbidity which could be reduced by performing the procedure off-pump. Replacing the mitral valve in the closed, off-pump, beating heart requires extensive development and validation of surgical and imaging techniques. Image guidance systems and surgical access for off-pump mitral valve replacement have been previously developed, allowing the prosthetic valve to be safely introduced into the left atrium and inserted into the mitral annulus. The major remaining challenge is to design a method of securely anchoring the prosthetic valve inside the beating heart. The development of anchoring techniques has been hampered by the expense and difficulty in conducting large animal studies. In this paper, we demonstrate how prosthetic valve anchoring may be evaluated in a dynamic phantom. The phantom provides a consistent testing environment where pressure measurements and Doppler ultrasound can be used to monitor and assess the valve anchoring procedures, detecting pararvalvular leak when valve anchoring is inadequate. Minimally invasive anchoring techniques may be directly compared to the current gold standard of valves sutured under direct vision, providing a useful tool for the validation of new surgical instruments.

  16. A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination

    OpenAIRE

    Gang Li; Hillier, LaDeana W; Grahn, Robert A.; Zimin, Aleksey V; David, Victor A.; Marilyn Menotti-Raymond; Rondo Middleton; Steven Hannah; Sher Hendrickson; Alex Makunin; O’Brien, Stephen J; Pat Minx; Wilson, Richard K.; Lyons, Leslie A.; Warren, Wesley C.

    2016-01-01

    High-resolution genetic and physical maps are invaluable tools for building accurate genome assemblies, and interpreting results of genome-wide association studies (GWAS). Previous genetic and physical maps anchored good quality draft assemblies of the domestic cat genome, enabling the discovery of numerous genes underlying hereditary disease and phenotypes of interest to the biomedical science and breeding communities. However, these maps lacked sufficient marker density to order thousands o...

  17. Molecular phenotype of zebrafish ovarian follicle by serial analysis of gene expression and proteomic profiling, and comparison with the transcriptomes of other animals

    Directory of Open Access Journals (Sweden)

    Forgue Jean

    2006-03-01

    Full Text Available Abstract Background The ability of an oocyte to develop into a viable embryo depends on the accumulation of specific maternal information and molecules, such as RNAs and proteins. A serial analysis of gene expression (SAGE was carried out in parallel with proteomic analysis on fully-grown ovarian follicles from zebrafish (Danio rerio. The data obtained were compared with ovary/follicle/egg molecular phenotypes of other animals, published or available in public sequence databases. Results Sequencing of 27,486 SAGE tags identified 11,399 different ones, including 3,329 tags with an occurrence superior to one. Fifty-eight genes were expressed at over 0.15% of the total population and represented 17.34% of the mRNA population identified. The three most expressed transcripts were a rhamnose-binding lectin, beta-actin 2, and a transcribed locus similar to the H2B histone family. Comparison with the large-scale expressed sequence tags sequencing approach revealed highly expressed transcripts that were not previously known to be expressed at high levels in fish ovaries, like the short-sized polarized metallothionein 2 transcript. A higher sensitivity for the detection of transcripts with a characterized maternal genetic contribution was also demonstrated compared to large-scale sequencing of cDNA libraries. Ferritin heavy polypeptide 1, heat shock protein 90-beta, lactate dehydrogenase B4, beta-actin isoforms, tubulin beta 2, ATP synthase subunit 9, together with 40 S ribosomal protein S27a, were common highly-expressed transcripts of vertebrate ovary/unfertilized egg. Comparison of transcriptome and proteome data revealed that transcript levels provide little predictive value with respect to the extent of protein abundance. All the proteins identified by proteomic analysis of fully-grown zebrafish follicles had at least one transcript counterpart, with two exceptions: eosinophil chemotactic cytokine and nothepsin. Conclusion This study provides a

  18. Multiple Genetic Analysis System-Based Antibiotic Susceptibility Testing in Helicobacter pylori and High Eradication Rate With Phenotypic Resistance-Guided Quadruple Therapy.

    Science.gov (United States)

    Dong, Fangyuan; Ji, Danian; Huang, Renxiang; Zhang, Fan; Huang, Yiqin; Xiang, Ping; Kong, Mimi; Nan, Li; Zeng, Xianping; Wu, Yong; Bao, Zhijun

    2015-11-01

    Antibiotics resistance in Helicobacter pylori (H. pylori) is the major factor for eradication failure. Molecular tests including fluorescence in situ hybridization, PCR-restriction fragment length polymorphism, and dual priming oligonucleotide-PCR (DPO-PCR) play critical roles in the detection of antibiotic susceptibility; however, limited knowledge is known about application of multiple genetic analysis system (MGAS) in the area of H. pylori identification and antibiotics resistance detection.The aim of this study is to determine the antibiotics resistance using different molecular tests and evaluate the treatment outcomes of E-test-based genotypic resistance.A total of 297 patients with dyspepsia complaint were recruited for gastroscopies. Ninety patients with H. pylori culture positive were randomly divided into 2 groups (test group and control group). E-test, general PCR, and MGAS assay were performed in test group. Patients in control group were treated with empirical therapy (rabeprazole + bismuth potassium citrate + amoxicillin [AMX] + clarithromycin [CLR]), whereas patients in test group received quadruple therapy based on E-test results twice daily for 14 consecutive days. The eradication effect of H. pylori was confirmed by C-urea breath test after at least 4 weeks when treatment was finished.Rapid urease test showed 46.5% (128/297) patients with H. pylori infection, whereas 30.3% (90/297) patients were H. pylori culture positive. E-test showed that H. pylori primary resistance rate to CLR, AMX, metronidazole, tetracycline, and levofloxacin (LVX) was 40.0% (18/45), 4.4% (2/45), 53.3% (24/45), 0% (0/45), and 55.6% (25/45), respectively. In addition, there are many multidrug resistant (MDR) phenotypes, and the MDR strains have higher minimum inhibitory concentration than their single-drug resistant counterparts. Considering E-test as the reference test, the sensitivities of general PCR and MGAS in detecting CLR resistance were 83.3% (15/18) and 94.4% (17

  19. Communication: Electrical rectification of C59N: The role of anchoring and doping sites.

    Science.gov (United States)

    Tawfik, Sherif Abdulkader; Cui, X Y; Ringer, S P; Stampfl, C

    2016-01-14

    Based on the nonequilibrium Green's function formalism and density-functional theory, we investigate the onset of electrical rectification in a single C59N molecule in conjunction with gold electrodes. Our calculations reveal that rectification is dependent upon the anchoring of the Au atom on C59N; when the Au electrode is singly bonded to a C atom (labeled here as A), the system does not exhibit rectification, whereas when the electrode is connected to the C-C bridge site between two hexagonal rings (labeled here as B), transmission asymmetry is observed, where the rectification ratio reaches up to 2.62 at ±1 V depending on the N doping site relative to the anchoring site. Our analysis of the transmission mechanism shows that N doping of the B configuration causes rectification because more transmission channels are available for transmission in the B configuration than in the A configuration.

  20. Communication: Electrical rectification of C{sub 59}N: The role of anchoring and doping sites

    Energy Technology Data Exchange (ETDEWEB)

    Tawfik, Sherif Abdulkader, E-mail: sherif.abbas@sydney.edu.au; Stampfl, C. [School of Physics, The University of Sydney, Sydney, New South Wales 2006 (Australia); Cui, X. Y.; Ringer, S. P. [Australian Centre for Microscopy and Microanalysis, and School of Aerospace, Mechanical and Mechatronic Engineering, The University of Sydney, Sydney, New South Wales 2006 (Australia)

    2016-01-14

    Based on the nonequilibrium Green’s function formalism and density-functional theory, we investigate the onset of electrical rectification in a single C{sub 59}N molecule in conjunction with gold electrodes. Our calculations reveal that rectification is dependent upon the anchoring of the Au atom on C{sub 59}N; when the Au electrode is singly bonded to a C atom (labeled here as A), the system does not exhibit rectification, whereas when the electrode is connected to the C–C bridge site between two hexagonal rings (labeled here as B), transmission asymmetry is observed, where the rectification ratio reaches up to 2.62 at ±1 V depending on the N doping site relative to the anchoring site. Our analysis of the transmission mechanism shows that N doping of the B configuration causes rectification because more transmission channels are available for transmission in the B configuration than in the A configuration.

  1. Dynamic interaction between the soil and an anchored sheet pile during seismic excitation

    Science.gov (United States)

    Degrande, G.; Praet, E.; van Zegbroeck, B.; van Marcke, P.

    2002-05-01

    A subdomain approach for dynamic soil-structure interaction is proposed for the linear elastic seismic analysis of an anchored sheet pile, retaining a horizontally layered soil on rigid bedrock. A hybrid solution technique is used, employing a finite element formulation for the generalized sheet pile, a thin layer formulation for the soil and a direct stiffness formulation for the tieback; the displacement vectors of the sheet pile and the soil are decomposed, using the eigenmodes of the sheet pile and the propagating or decaying modes in the soil. The discretization can be limited to the interface(s), where pointwise continuity of the displacements is enforced, whereas a weak variational formulation is used for the stress equilibrium. The solution technique is illustrated by means of a numerical example, where the harmonic response of a flexible anchored sheet pile is considered and compared to the case where no tieback is present.

  2. Communication: Electrical rectification of C59N: The role of anchoring and doping sites

    International Nuclear Information System (INIS)

    Based on the nonequilibrium Green’s function formalism and density-functional theory, we investigate the onset of electrical rectification in a single C59N molecule in conjunction with gold electrodes. Our calculations reveal that rectification is dependent upon the anchoring of the Au atom on C59N; when the Au electrode is singly bonded to a C atom (labeled here as A), the system does not exhibit rectification, whereas when the electrode is connected to the C–C bridge site between two hexagonal rings (labeled here as B), transmission asymmetry is observed, where the rectification ratio reaches up to 2.62 at ±1 V depending on the N doping site relative to the anchoring site. Our analysis of the transmission mechanism shows that N doping of the B configuration causes rectification because more transmission channels are available for transmission in the B configuration than in the A configuration

  3. Flapping states of an el astically anchored wing in a uniform flow

    CERN Document Server

    Orchini, A; Guerrero, J; Festa, R; Boragno, C

    2012-01-01

    Linear stability analysis of an elastically anchored wing in a uniform flow is investigated both analytically and numerically. The analytical formulation explicitly takes into account the effect of the wake on the wing by means of Theodorsen's theory. Three different parameters non-trivially rule the observed dynamics: mass density ratio between wing and fluid, spring elastic constant and distance between the wing center of mass and the spring anchor point on the wing. We found relationships between these parameters which rule the transition between stable equilibrium and fluttering. The shape of the resulting marginal curve has been successfully verified by high Reynolds number direct numerical simulations. Our findings are of interest in applications related to energy harvesting by fluid-structure interaction, a problem which has recently attracted a great deal of attention. The main aim in that context is to identify the optimal physical/geometrical system configuration leading to large sustained motion, w...

  4. Palladium nanoparticle anchored polyphosphazene nanotubes: preparation and catalytic activity on aryl coupling reactions

    Indian Academy of Sciences (India)

    V Devi; A Ashok Kumar; S Sankar; K Dinakaran

    2015-06-01

    Highly accessible-supported palladium (Pd) nanoparticles anchored polyphosphazene (PPZ) nanotubes (NTs) having average diameter of 120 nm were synthesized rapidly at room temperature and homogeneously decorated with Pd nanoparticles. The resultant PPZ–Pd nanocomposites were morphologically and structurally characterized by means of transmission electron microscope equipped with energy-dispersive X-ray spectroscopy and X-ray diffraction analysis. Characterization results showed that the Pd nanoparticles with good dispersibility could be well anchored onto the surfaces of the PPZ NTs. The PPZ–Pd NTs show enhanced catalytic activity for the Suzuki coupling of aryl bromides with arylboronic acid. In addition, these PPZ–Pd NTs show excellent behaviour as reusable catalysts of the Suzuki and Heck coupling reactions.

  5. Integrated method for adaptability and phenotypic stability analysis = Método integrado para análise de adaptabilidade e estabilidade fenotipica

    Directory of Open Access Journals (Sweden)

    Edmar Soares de Vasconcelos

    2011-04-01

    Full Text Available The objectives of this study were a description of the Centroid Method, which is used to investigate the phenotypic adaptability of genotypes and the inclusion of new ideotypes therein, creating the Integrated Method for adaptability and phenotypic stability analysis, as well as a comparison of the two methods in a study example. As an applied example of the new proposal, grain yield data of 14 soybean genotypes from experiments at four locations in the state of Minas Gerais were used. In a comparison, the qualitative and quantitative gains of the Centroid Method with seven ideotypes were higher than of the Centroid Method with only four ideotypes for adaptability analysis. With the incorporation of the new ideotypes into theCentroid Method other concepts for the adaptability and phenotypic stability analysis are represented and the modified method was designated “Integrated Method of Adaptability and Stability Analysis”. CS 801 genotype was classified as the genotype with best adaptability to the environments Viçosa, Florestal, São Gotardo and Rio Paranaiba. The stability of the genotypes CAC 1, CS 741, Splendor, UFV 16, UFV 19, UFVP IV-6, UFVP IV-8, UFVP V-15, UFVP V-7,and UFV98700739 was classified as general.Os objetivos deste trabalho foram apresentar uma modificação ao método original do Centróide inserindo novos ideótipos, gerando uma proposta denominada Método Integrado para análise adaptabilidade e estabilidade fenotípica e comparar as duas metodologias. Como exemplo de aplicação da nova proposta foi utilizado dados de produtividade de grãos de quatorze genótipos de soja obtidos em experimentos conduzidos em quatro locais, no Estado de Minas Gerais. O novo método do Centróide com sete ideótipos propiciou ganhos qualitativos e quantitativos perante o método original do Centróide que possuía apenas quatro ideótipos para análise de adaptabilidade. Os novos ideótipos inseridos ao método do Centróide original

  6. [Effect of gametocidal chromosome 4S' on the phenotype segregation ratio in genetic analysis of common wheat lines].

    Science.gov (United States)

    Vdovichenko, Zh V; Antoniuk, M Z; Ternovskaia, T K

    2003-01-01

    Using experimental data on genetic analysis of introgressive lines for the character "hairy leaf sheath" controlled by the "cuckoo" chromosome 4S1, the algorithm for calculation of the theoretical segregation ratio in F2 was developed. Segregation distortion is caused by non-viability of the majority of gametes lacking the chromosome 4S1. The frequency of functioning gametes without the chromosome 4S1 is determined by the probability p versus the theoretically expected ratio 7 nonviable: 9 viable ones. Since segregation involves two characters, gamete viability and hairiness, the ratio 15 hairy: 1 hairless was used as a basis for search of the frequency p by maximum-likelihood method using 16 populations F2 from crossing the lines differing in the character studied. PMID:14650327

  7. Integrative Functional Genomics Analysis of Sustained Polyploidy Phenotypes in Breast Cancer Cells Identifies an Oncogenic Profile for GINS2

    Directory of Open Access Journals (Sweden)

    Juha K. Rantala

    2010-11-01

    Full Text Available Aneuploidy is among the most obvious differences between normal and cancer cells. However, mechanisms contributing to development and maintenance of aneuploid cell growth are diverse and incompletely understood. Functional genomics analyses have shown that aneuploidy in cancer cells is correlated with diffuse gene expression signatures and aneuploidy can arise by a variety of mechanisms, including cytokinesis failures, DNA endoreplication, and possibly through polyploid intermediate states. To identify molecular processes contributing to development of aneuploidy, we used a cell spot microarray technique to identify genes inducing polyploidy and/or allowing maintenance of polyploid cell growth in breast cancer cells. Of 5760 human genes screened, 177 were found to induce severe DNA content alterations on prolonged transient silencing. Association with response to DNA damage stimulus and DNA repair was found to be the most enriched cellular processes among the candidate genes. Functional validation analysis of these genes highlighted GINS2 as the highest ranking candidate inducing polyploidy, accumulation of endogenous DNA damage, and impairing cell proliferation on inhibition. The cell growth inhibition and induction of polyploidy by suppression of GINS2 was verified in a panel of breast cancer cell lines. Bioinformatic analysis of published gene expression and DNA copy number studies of clinical breast tumors suggested GINS2 to be associated with the aggressive characteristics of a subgroup of breast cancers in vivo. In addition, nuclear GINS2 protein levels distinguished actively proliferating cancer cells suggesting potential use of GINS2 staining as a biomarker of cell proliferation as well as a potential therapeutic target.

  8. Genome anchored QTLs for biomass productivity in Hybrid Populus: Heterosis and detection across Contrasting Environments.

    Energy Technology Data Exchange (ETDEWEB)

    Muchero, Wellington [ORNL; Sewell, Mitchell [ORNL; Gunter, Lee E [ORNL; Tschaplinski, Timothy J [ORNL; Yin, Tongming [ORNL; DiFazio, Steven P [West Virginia University; Tuskan, Gerald A [ORNL

    2013-01-01

    Traits related to biomass production were analyzed for the presence of quantitative trait loci (QTLs) in an interspecific F2 population derived from an outbred Populus trichocarpa P. deltoides parental cross. Three years of phenotypic data for stem growth traits (height and diameter) were collected from two parental, two F1 and 339 F2 trees in a clonal trial replicated both within and among two environmentally contrasting sites in the North American Pacific Northwest. A genetic linkage map comprised of 841 SSR, AFLP, and RAPD markers and phenotypic data from 310 progeny were used to identify genomic regions harboring QTL using the Multiple-QTL Model (MQM) package of the statistical program MapQTL 6. A total of twelve QTLs, nine putative and three suggestive, were identified with eight of these being identified at both sites in at least one experiment. Of these, three putative QTL BM-1, BM-2, BM-7, on LGs I, II, and XIV, respectively, were identified in all three years for both height and diameter. Two QTLs BM-2 and BM-7, on LG II and XIV, respectively, exhibited significant evidence of over-dominance in all three years for both traits. Conversely a QTL on BM-6 LG XIII exhibited out-breeding depression in two years for both height and diameter. The remaining nine QTLs showed difference levels of dominance and additive effects. Seven of the nine QTL were successfully anchored and QTL peak positions were estimated for each one on the P. trichocarpa genome assembly using flanking SSR markers with known physical positions positions. QTL BM-7 on LG XIV had been anchored on the genome assembly in a previous study, therefore eight QTLs identified in this study were assigned genome assembly positions. Physical distances encompassed by each QTL regions ranged from 1.3 to 8.8 Mb.

  9. Metabolomic phenotyping of af cloned pig model

    DEFF Research Database (Denmark)

    Clausen, Morten Rahr; Christensen, Kirstine Lykke; Hedemann, Mette Skou;

    2011-01-01

    Background Pigs are widely used as models for human physiological changes in intervention studies, because of the close resemblance between human and porcine physiology and the high degree of experimental control when using an animal model. Cloned animals have, in principle, identical genotypes...... and possibly also phenotypes and this offer an extra level of experimental control which could possibly make them a desirable tool for intervention studies. Therefore, in the present study, we address how phenotype and phenotypic variation is affected by cloning, through comparison of cloned pigs and normal...... outbred pigs. Results The metabolic phenotype of cloned pigs (n = 5) was for the first time elucidated by nuclear magnetic resonance (NMR)-based metabolomic analysis of multiple bio-fluids including plasma, bile and urine. The metabolic phenotype of the cloned pigs was compared with normal outbred pigs (n...

  10. Econophysical anchoring of unimodal power-law distributions

    Science.gov (United States)

    Eliazar, Iddo I.; Cohen, Morrel H.

    2013-09-01

    The sciences are abundant with size distributions whose densities have a unimodal shape and power-law tails both at zero and at infinity. The quintessential examples of such unimodal and power-law (UPL) distributions are the sizes of income and wealth in human societies. While the tails of UPL distributions are precisely quantified by their corresponding power-law exponents, their bulks are only qualitatively characterized as unimodal. Consequently, different statistical models of UPL distributions exist, the most popular considering lognormal bulks. In this paper we present a general econophysical framework for UPL distributions termed ‘the anchoring method’. This method: (i) universally approximates UPL distributions via three ‘anchors’ set at zero, at infinity, and at an intermediate point between zero and infinity (e.g. the mode); (ii) is highly versatile and broadly applicable; (iii) encompasses the existing statistical models of UPL distributions as special cases; (iv) facilitates the introduction of new statistical models of UPL distributions and (v) yields a socioeconophysical analysis of UPL distributions.

  11. Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types

    Science.gov (United States)

    Piccolo, Stephen R.; Zhang, Xiao-Qin; Li, Jun-Hao; Zhou, Hui; Yang, Jian-Hua; Qu, Liang-Hu

    2016-01-01

    Long non-coding RNAs (lncRNAs) have been shown to contribute to tumorigenesis. However, surprisingly little is known about the comprehensive clinical and genomic characterization of lncRNAs across human cancer. In this study, we conducted comprehensive analyses for the expression profile, clinical outcomes, somatic copy number alterations (SCNAs) profile of lncRNAs in ~7000 clinical samples from 15 different cancer types. We identified significantly differentially expressed lncRNAs between tumor and normal tissues from each cancer. Notably, we characterized 47 lncRNAs which were extensively dysregulated in at least 10 cancer types, suggesting a conserved function in cancer development. We also analyzed the associations between lncRNA expressions and patient survival, and identified sets of lncRNAs that possessed significant prognostic values in specific cancer types. Our combined analysis of SCNA data and expression data uncovered 116 dysregulated lncRNAs are strikingly genomic altered across 15 cancer types, indicating their oncogenic potentials. Our study may lay the groundwork for future functional studies of lncRNAs and help facilitate the discovery of novel clinical biomarkers. PMID:27147563

  12. Quantitative genetic analysis indicates natural selection on leaf phenotypes across wild tomato species (Solanum sect. Lycopersicon; Solanaceae).

    Science.gov (United States)

    Muir, Christopher D; Pease, James B; Moyle, Leonie C

    2014-12-01

    Adaptive evolution requires both raw genetic material and an accessible path of high fitness from one fitness peak to another. In this study, we used an introgression line (IL) population to map quantitative trait loci (QTL) for leaf traits thought to be associated with adaptation to precipitation in wild tomatoes (Solanum sect. Lycopersicon; Solanaceae). A QTL sign test showed that several traits likely evolved under directional natural selection. Leaf traits correlated across species do not share a common genetic basis, consistent with a scenario in which selection maintains trait covariation unconstrained by pleiotropy or linkage disequilibrium. Two large effect QTL for stomatal distribution colocalized with key genes in the stomatal development pathway, suggesting promising candidates for the molecular bases of adaptation in these species. Furthermore, macroevolutionary transitions between vastly different stomatal distributions may not be constrained when such large-effect mutations are available. Finally, genetic correlations between stomatal traits measured in this study and data on carbon isotope discrimination from the same ILs support a functional hypothesis that the distribution of stomata affects the resistance to CO2 diffusion inside the leaf, a trait implicated in climatic adaptation in wild tomatoes. Along with evidence from previous comparative and experimental studies, this analysis indicates that leaf traits are an important component of climatic niche adaptation in wild tomatoes and demonstrates that some trait transitions between species could have involved few, large-effect genetic changes, allowing rapid responses to new environmental conditions. PMID:25298519

  13. Applicability of genetic polymorphism analysis for the diagnosis of Angelman syndrome and the correlation between language difficulties and disease phenotype.

    Science.gov (United States)

    Wang, K; Li, Y T; Hou, M

    2016-01-01

    Angelman syndrome (AS) is a neurogenetic disorder caused by a defect in the expression of the maternally inherited ubiquitin protein ligase E3A (UBE3A) gene in chromosome 15. The most common genetic defects include maternal deletions in chromosome 15q11-13; however, paternal uniparental disomy and imprinting defects allow for the identification of mutations in UBE3A in 10% of patients with AS. The aim of this study was to validate the clinical features and genetic polymorphisms of AS, and to discuss the relationship between functional language lateralization and the arcuate fasciculus in the Broca's and Wernicke's areas. Six children with AS (mean age = 32.57 months) presenting characteristic behavioral patterns of AS (frequent laughter and happy demeanor, hand flapping, and hypermotor behavior) were recruited to this study. The patients underwent a clinical evaluation (clinical history, dysmorphological and neurological examinations, and psychological evaluations) and paraclinical investigations [genetic tests (fluorescence in situ hybridization and methylation polymerase chain reaction), electroencephalogram, and magnetic resonance imaging]. We conclude that AS diagnosis cannot rely solely on genetic testing for polymorphisms in UBE3A and must consider its clinical characteristics. Moreover, functional language lateralization and the arcuate fasciculus in the Broca's and Wernicke's areas were found to be closely correlated. Therefore, UBE3A gene mutation analysis combined with comprehensive clinical evaluations may be suitable for the diagnosis of AS. PMID:27323188

  14. Perceptual anchoring in preschool children: not adultlike, but there.

    Directory of Open Access Journals (Sweden)

    Karen Banai

    Full Text Available BACKGROUND: Recent studies suggest that human auditory perception follows a prolonged developmental trajectory, sometimes continuing well into adolescence. Whereas both sensory and cognitive accounts have been proposed, the development of the ability to base current perceptual decisions on prior information, an ability that strongly benefits adult perception, has not been directly explored. Here we ask whether the auditory frequency discrimination of preschool children also improves when given the opportunity to use previously presented standard stimuli as perceptual anchors, and whether the magnitude of this anchoring effect undergoes developmental changes. METHODOLOGY/PRINCIPAL FINDINGS: Frequency discrimination was tested using two adaptive same/different protocols. In one protocol (with-reference, a repeated 1-kHz standard tone was presented repeatedly across trials. In the other (no-reference, no such repetitions occurred. Verbal memory and early reading skills were also evaluated to determine if the pattern of correlations between frequency discrimination, memory and literacy is similar to that previously reported in older children and adults. Preschool children were significantly more sensitive in the with-reference than in the no-reference condition, but the magnitude of this anchoring effect was smaller than that observed in adults. The pattern of correlations among discrimination thresholds, memory and literacy replicated previous reports in older children. CONCLUSIONS/SIGNIFICANCE: The processes allowing the use of context to form perceptual anchors are already functional among preschool children, albeit to a lesser extent than in adults. Nevertheless, immature anchoring cannot fully account for the poorer frequency discrimination abilities of young children. That anchoring is present among the majority of typically developing preschool children suggests that the anchoring deficits observed among individuals with dyslexia represent a

  15. High-resolution structure of TBP with TAF1 reveals anchoring patterns in transcriptional regulation

    Science.gov (United States)

    Anandapadamanaban, Madhanagopal; Andresen, Cecilia; Helander, Sara; Ohyama, Yoshifumi; Siponen, Marina I.; Lundström, Patrik; Kokubo, Tetsuro; Ikura, Mitsuhiko; Moche, Martin; Sunnerhagen, Maria

    2016-01-01

    The general transcription factor TFIID provides a regulatory platform for transcription initiation. Here we present the crystal structure (1.97 Å) and NMR analysis of yeast TAF1 N-terminal domains TAND1 and TAND2 when bound to yeast TBP, together with mutational data. The yTAF1-TAND1, which in itself acts as a transcriptional activator, binds into the DNA-binding TBP concave surface by presenting similar anchor residues to TBP as E. coli Mot1 but from a distinct structural scaffold. Furthermore, we show how yTAF1-TAND2 employs an aromatic and acidic anchoring pattern to bind a conserved yTBP surface groove traversing the basic helix region, and we find highly similar TBP-binding motifs also presented by the structurally distinct TFIIA, Mot1 and Brf1 proteins. Our identification of these anchoring patterns, which can be easily disrupted or enhanced, provides compelling insight into the competitive multiprotein TBP interplay critical to transcriptional regulation. PMID:23851461

  16. Stresses induced by post-tensioned anchor in jointed rock mass

    Institute of Scientific and Technical Information of China (English)

    Alan Showkati; Parviz Maarefvand; Hossein Hassani

    2015-01-01

    A new analytical study on stresses around a post-tensioned anchor in rocks with two perpendicular joint sets is presented. The assumptions of orthotropic elastic rock with plane strain conditions are made in derivation of the formulations. A tri-linear bond-slip constitutive law is used for modeling the tendon-grout interface behavior and debonding of this interface. The bearing plate width is also considered in the analysis. The obtained solutions are in the integral forms and numerical techniques that have been used for evaluation. In the illustrative example given, the major principal stress is compressive in the anchor free zone and compressive stress concentrations of 815 kPa and 727 kPa (for the anchor load of 300 kN) are observed under the bearing plate and the bond length proximal end, respectively. However, large values of tensile stresses with the maximum of−434 kPa are formed at the bond length distal end. The results obtained using the proposed solution are compared very those of numerical method (FEM).

  17. Electrical properties and mechanical stability of anchoring groups for single-molecule electronics

    Directory of Open Access Journals (Sweden)

    Riccardo Frisenda

    2015-07-01

    Full Text Available We report on an experimental investigation of transport through single molecules, trapped between two gold nano-electrodes fabricated with the mechanically controlled break junction (MCBJ technique. The four molecules studied share the same core structure, namely oligo(phenylene ethynylene (OPE3, while having different aurophilic anchoring groups: thiol (SAc, methyl sulfide (SMe, pyridyl (Py and amine (NH2. The focus of this paper is on the combined characterization of the electrical and mechanical properties determined by the anchoring groups. From conductance histograms we find that thiol anchored molecules provide the highest conductance; a single-level model fit to current–voltage characteristics suggests that SAc groups exhibit a higher electronic coupling to the electrodes, together with better level alignment than the other three groups. An analysis of the mechanical stability, recording the lifetime in a self-breaking method, shows that Py and SAc yield the most stable junctions while SMe form short-lived junctions. Density functional theory combined with non-equlibrium Green’s function calculations help in elucidating the experimental findings.

  18. Operative treatment of acromioclavicular joint dislocation:a new technique with suture anchors

    Institute of Scientific and Technical Information of China (English)

    Zhang Jingwei; Li Min; He Xianfeng; Yu Yihui; Zhu Limei

    2014-01-01

    Objective:To evaluate clinical outcome of suture anchors in strengthening both acromioclavicular and coracoclavicular ligaments in the surgical treatment of acromioclavicular joint dislocation.Methods:Twenty-eight patients with acute traumatic Rockwood Ⅲ,Ⅳ and Ⅴ dislocations of the acromioclavicular joint surgically treated at our institute between October 2010 and January 2012 were recruited.All patients underwent open reduction combined with suture anchors.Function was evaluated using the ConstantMurley shoulder score.Clinical and radiographic shoulder ratings were evaluated using Taft criteria at 3,6 and 12 months.Results:Two cases with fixation loosening were not included in final statistical analysis.Other patients obtained full joint reposition on immediate postoperative radiographs.Follow-up was performed with an average of 15.6 months (range,12-19).After early range of motion exercises,96.2% of the patients (25/26) could abduct and elevate their shoulders more than 90 degrees within postoperative 3 months.There was no infection.Average Constant-Murley score was 96.3 points (range,94-100)and mean Taft shoulder rating was 10.7 points (range,8-12) at 12 months.Conclusion:The suture anchor is a relatively simple technique and can avoid screw removal which is helpful in reconstructing both acromioclavicular and coracoclavicular ligaments in acute traumatic acromioclavicular joint dislocation.

  19. Role of suture anchors in management of fractures of inferior pole of patella

    Directory of Open Access Journals (Sweden)

    Anand Ashish

    2010-01-01

    Full Text Available Background: The traditional recommendation for displaced comminuted inferior pole fractures is excision of the comminuted pole followed by reattachment of the patellar tendon with transosseous suture. To the best of our knowledge there has been no previous published study mentioning the use of suture anchors for fracture inferior pole of patella. We present a retrospective analysis of five cases of patients doing well at final follow-up of two years. Materials and Methods: Five patients treated at our institute using suture anchors for repair of comminuted inferior pole fractures of patella between January 2007 to March 2007. (range 28 years-55 years. There were three males and two females. Results: The average follow-up was 25 months (range 24 months-26 months. The patients were evaluated for range of motion, strength, patellofemoral scores and any alteration of patellar height. The outcome of the procedure was assessed with use of the patellofemoral scoring system of Noyes et al, 5 as adapted by Saltzman et al. 6 The final patellofemoral score (maximum 100 points was 94.6 (range 93-96. Conclusion: We believe it is a novel extended indication of the use of suture anchors and should be in the armament of every trauma surgeon.

  20. Anchoring of Expectations: The Role of Credible Targets in a Game Experiment

    Directory of Open Access Journals (Sweden)

    Bodo Herzog

    2015-10-01

    Full Text Available This paper provides new evidence on the formation and anchoring of inflation expectations. I conduct a game experiment and analyze the adjustment as well as the impact of credible targets on expectations. In addition, I evaluate the idiosyncratic determinants on the formation of expectations. The analysis reveals six results: First, I find evidence that long-term inflation expectations are firmly anchored to a credible target. Second, a temporary deviation due to unexpected monetary policy might trigger a decline in credibility, and third a de-anchoring of expectations due to uncertainty. Fourth, I find that people change their expectations little if a credible target exists. Fifth, expectations exhibit a large degree of time-variance only in environments without a target. Sixth, the dynamic adjustment to an ‘incomplete’ equilibrium, which is theoretically unstable, is nevertheless rapid and persistent in case of credible targets. All in all, I demonstrate a unique game setup with contributions to both experimental and monetary economics.

  1. Phenotypic Plasticity of Life History Characteristics:Quantitative Analysis of Delayed Reproduction of Green Foxtail (Setaria viridis) in the Songnen Plain of China

    Institute of Scientific and Technical Information of China (English)

    Hai-Yan Li; Yun-Fei Yang

    2008-01-01

    Green foxtail (Setaria viridis L,) is a common weed species in temperate regions. Research on the effect of delayed reproduction on the phenotypic plasticity and regularity of the vegetative and reproductive growth is of vital significance for understanding population regulation and control of the weed in the growing season, Green foxtail seeds were sown every 10 days from 25 June to 24 August of 2004. The growth and production metrics were measured via harvesting tufts and statistical analysis was carried out. The results showed that the reproductive tillers, seed number, seed biomass and one thousand-seed weight of plants at the first sowing (25 June) approximately increased 28.8, 7827.0, 1104.0 and 12.3 times compared with that at the last sowing (24 August), respectively. Total tillers, reproductive tillers and height increased linearly as the reproductive period delayed, however, biomass increased exponentially. Quadratic equations best explained the relationships between the delayed reproductive period and seed number, Inflorescence length, one thousand-seed weight, seed biomass. Based on the quantity and quality of seed production, weeding young seedlings emerging before July can be the most effective weed-control strategy in the Songnen Plain.

  2. Decay accelerating factor of complement is anchored to cells by a C-terminal glycolipid

    International Nuclear Information System (INIS)

    Membrane-associated decay accelerating factor (DAF) of human erythrocytes (E/sup hu/) was analyzed for a C-terminal glycolipid anchoring structure. Automated amino acid analysis of DAF following reductive radiomethylation revealed ethanolamine and glucosamine residues in proportions identical with those present in the E/sup hu/ acetylcholinesterase (AChE) anchor. Cleavage of radiomethylated 70-kilodalton (kDa) DAF with papain released the labeled ethanolamine and glucosamine and generated 61- and 55-kDa DAF products that retained all labeled Lys and labeled N-terminal Asp. Incubation of intact E/sup hu/ with phosphatidylinositol-specific phospholipase C (PI-PLC), which cleaves the anchors in trypanosome membrane form variant surface glycoproteins (mfVSGs) and murine thymocyte Thy-1 antigen, released 15% of the cell-associated DAF antigen. The released 67-kDa PI-PLC DAF derivative retained its ability to decay the classical C3 convertase C4b2a but was unable to membrane-incorporate and displayed physicochemical properties similar to urine DAF, a hydrophilic DAF form that can be isolated for urine. Nitrous acid deamination cleavage of E/sup hu/ DAF at glucosamine following labeling with the lipophilic photoreagent 3-(trifluoromethyl)-3-(m-[125I]iodophenyl)diazirine ([125I]TID) released the [125I]TID label in a parallel fashion as from [125I]TID-labeled AChE. Biosynthetic labeling of HeLa cells with [3H] ethanolamine resulted in rapid 3H incorporation into both 48-kDa pro-DAF and 72-kDa mature epithelial cell DAF. The findings indicate that DAF and AChE are anchored in E/sup hu/ by the same or a similar glycolipid structure and that, like VSGs, this structure is incorporated into DAF early in DAF biosynthesis prior to processing of pro-DAF in the Golgi

  3. Employees’ work engagement and job commitment: The moderating role of career anchors

    Directory of Open Access Journals (Sweden)

    Melinde Coetzee

    2014-02-01

    Full Text Available Orientation: Organisations continue to focus on human resource initiatives for enhancingemployee commitment, satisfaction and engagement in order to gain a competitive edge in adynamic and fast-changing marketplace.Research purpose: The objective of the present study was to assess whether individuals’career anchors (measured by the career orientations inventory significantly moderate therelationship between their work engagement (measured by the Utrecht work engagementscale and job commitment (measured by the organisation-related commitment scale.Motivation for the study: Although the literature review suggests that people’s workengagement and job commitment may be influenced by their career anchors, there seems to bea paucity of research examining the interaction effects between these three variables.Research approach, design and method: A cross-sectional quantitative survey approach wasused. A non-probability purposive sample of adults (N = 318 employed in a human resourcecapacity in the South African service industry participated in the study. Stepwise hierarchicalmoderated regression analysis was performed to achieve the objective of the study.Main findings: The results showed that the work engagement-job commitment relationshipwas generally stronger for high career anchor preferences than for low career anchorpreferences.Practical/managerial implications: The results of the study can be useful when human resourceinterventions for enhancing employees’ engagement and commitment are developed.Contribution: The results of the study add new insights to the career literature by showing thatpeople’s career self-concepts (as reflected by their career anchors are important to consider inenhancing their work engagement and job commitment.

  4. Is hexamerin receptor a GPI-anchored protein in Achaea janata (Lepidoptera: Noctuidae)?

    Indian Academy of Sciences (India)

    Madhusudhan Budatha; Thuirei Jacob Ningshen; Aparna Dutta-Gupta

    2011-08-01

    The process of uptake of hexamerins during metamorphosis from insect haemolymph by fat body cells is reminiscent of receptor-mediated endocytosis. Previously, we had identified a hexamerin-binding protein (HBP) and reported for the first time that uptake of hexamerins is dependent on the phosphorylation of HBP partly by a tyrosine kinase, which is, in turn, activated by 20-hydroxyecdysone (20E). However, the exact nature of HBP and the mechanism of interaction are still unknown. Here we report the possibility of HBP being a GPI-anchored protein in the fat body of Achaea janata and its role in the tyrosine-kinase-mediated phosphorylation signalling. Digestion of fat body membrane preparation with bacterial phosphatidylinositol-specific phospholipase C (PI-PLC), and the subsequent recognition by antibodies specific for the cross-reacting determinant (CRD), revealed that HBP is glycosylphosphatidylinositol (GPI)-anchored protein and, further, that the hexamerin binding to HBP was inhibited after digestion. Hexamerin overlay assay (HOA) of co-immunoprecipitated in vitro phosphorylated HBP showed exclusive binding to ∼120 kDa protein. Lectin-binding analysis of hexamerins revealed the presence of -acetylgalactosamine (GalNAc) and -acetylglucosamine (GluNAc), whereas HBP showed the presence of GalNac alone. Mild chemical deglycosylation studies and binding interaction in the presence of sugars revealed that glycan moieties are possibly not involved in the interaction between HBP and hexamerins. Taken together, these results suggest that HBP may be a GPI-anchored protein, and interaction and activation of HBP is through lipid-linked non-receptor src tyrosine kinases. However, additional studies are needed to prove that HBP is a GPI-anchored protein.

  5. Transcriptome analysis of a respiratory Saccharomyces cerevisiae strain suggests the expression of its phenotype is glucose insensitive and predominantly controlled by Hap4, Cat8 and Mig1

    Directory of Open Access Journals (Sweden)

    Bonander Nicklas

    2008-07-01

    Full Text Available Abstract Background We previously described the first respiratory Saccharomyces cerevisiae strain, KOY.TM6*P, by integrating the gene encoding a chimeric hexose transporter, Tm6*, into the genome of an hxt null yeast. Subsequently we transferred this respiratory phenotype in the presence of up to 50 g/L glucose to a yeast strain, V5 hxt1-7Δ, in which only HXT1-7 had been deleted. In this study, we compared the transcriptome of the resultant strain, V5.TM6*P, with that of its wild-type parent, V5, at different glucose concentrations. Results cDNA array analyses revealed that alterations in gene expression that occur when transitioning from a respiro-fermentative (V5 to a respiratory (V5.TM6*P strain, are very similar to those in cells undergoing a diauxic shift. We also undertook an analysis of transcription factor binding sites in our dataset by examining previously-published biological data for Hap4 (in complex with Hap2, 3, 5, Cat8 and Mig1, and used this in combination with verified binding consensus sequences to identify genes likely to be regulated by one or more of these. Of the induced genes in our dataset, 77% had binding sites for the Hap complex, with 72% having at least two. In addition, 13% were found to have a binding site for Cat8 and 21% had a binding site for Mig1. Unexpectedly, both the up- and down-regulation of many of the genes in our dataset had a clear glucose dependence in the parent V5 strain that was not present in V5.TM6*P. This indicates that the relief of glucose repression is already operable at much higher glucose concentrations than is widely accepted and suggests that glucose sensing might occur inside the cell. Conclusion Our dataset gives a remarkably complete view of the involvement of genes in the TCA cycle, glyoxylate cycle and respiratory chain in the expression of the phenotype of V5.TM6*P. Furthermore, 88% of the transcriptional response of the induced genes in our dataset can be related to the potential

  6. Metabolomic phenotyping of a cloned pig model

    Directory of Open Access Journals (Sweden)

    Callesen Henrik

    2011-08-01

    Full Text Available Abstract Background Pigs are widely used as models for human physiological changes in intervention studies, because of the close resemblance between human and porcine physiology and the high degree of experimental control when using an animal model. Cloned animals have, in principle, identical genotypes and possibly also phenotypes and this offer an extra level of experimental control which could possibly make them a desirable tool for intervention studies. Therefore, in the present study, we address how phenotype and phenotypic variation is affected by cloning, through comparison of cloned pigs and normal outbred pigs. Results The metabolic phenotype of cloned pigs (n = 5 was for the first time elucidated by nuclear magnetic resonance (NMR-based metabolomic analysis of multiple bio-fluids including plasma, bile and urine. The metabolic phenotype of the cloned pigs was compared with normal outbred pigs (n = 6 by multivariate data analysis, which revealed differences in the metabolic phenotypes. Plasma lactate was higher for cloned vs control pigs, while multiple metabolites were altered in the bile. However a lower inter-individual variability for cloned pigs compared with control pigs could not be established. Conclusions From the present study we conclude that cloned and normal outbred pigs are phenotypically different. However, it cannot be concluded that the use of cloned animals will reduce the inter-individual variation in intervention studies, though this is based on a limited number of animals.

  7. Anchoring a Leviathan: How the Nuclear Membrane Tethers the Genome.

    Science.gov (United States)

    Czapiewski, Rafal; Robson, Michael I; Schirmer, Eric C

    2016-01-01

    It is well established that the nuclear envelope has many distinct direct connections to chromatin that contribute to genome organization. The functional consequences of genome organization on gene regulation are less clear. Even less understood is how interactions of lamins and nuclear envelope transmembrane proteins (NETs) with chromatin can produce anchoring tethers that can withstand the physical forces of and on the genome. Chromosomes are the largest molecules in the cell, making megadalton protein structures like the nuclear pore complexes and ribosomes seem small by comparison. Thus to withstand strong forces from chromosome dynamics an anchoring tether is likely to be much more complex than a single protein-protein or protein-DNA interaction. Here we will briefly review known NE-genome interactions that likely contribute to spatial genome organization, postulate in the context of experimental data how these anchoring tethers contribute to gene regulation, and posit several hypotheses for the physical nature of these tethers that need to be investigated experimentally. Significantly, disruption of these anchoring tethers and the subsequent consequences for gene regulation could explain how mutations in nuclear envelope proteins cause diseases ranging from muscular dystrophy to lipodystrophy to premature aging progeroid syndromes. The two favored hypotheses for nuclear envelope protein involvement in disease are (1) weakening nuclear and cellular mechanical stability, and (2) disrupting genome organization and gene regulation. Considerable experimental support has been obtained for both. The integration of both mechanical and gene expression defects in the disruption of anchoring tethers could provide a unifying hypothesis consistent with both.

  8. FINITE ELEMENT ANALYSIS OF SEISMIC BEHAVIOR OF RC FRAME JOINTS INDIRECTLY STRENGTHENED WITH TIED AND LOCK-ANCHORED CFRP SHEETS%系锚碳纤维布间接加固混凝土框架节点抗震性能有限元分析

    Institute of Scientific and Technical Information of China (English)

    贺学军; 余晓光; 周朝阳; 刘澍; 吴绪康

    2015-01-01

    系锚碳纤维布(简称CFRP)间接加固混凝土框架节点方法能够有效避免直接粘贴加固CFRP易剥离、难以在实际工程中实施等缺陷。通过对5个系锚CFRP间接加固节点在滞回曲线、节点承载力和延性系数等方面的有限元数值模拟对比分析,探讨节点梁端箍筋配箍率、纵向CFRP条带用量及横向CFRP条箍用量等参数对节点抗震性能的影响。分析结果表明:梁柱端间接加固的系锚CFRP能明显改善节点的抗震性能,其极限承载能力和梁端位移延性系数提高幅度分别达到19.8%和55.5%;在其他参数相同的情况下,增加梁端纵向CFRP条带的配置率能同时提高加固节点的抗震延性和承载能力,梁端箍筋配箍率能显著改善其抗震延性,梁柱端横向CFRP条箍配置率对加固节点的抗震延性和承载能力的提高作用不大,但能有效延缓纵筋的屈服和黏结滑移。%The method of indirectly strengthening RC frame joints with tied and lock-anchored carbon fiber reinforced polymer ( CFRP ) sheets can effectively avoid debonding of CFRP and infeasibility in practice which exist in strengthening directly.Based on the numerical simulation comparative analysis of the five strengthened joints'hysteresis curves, bearing capacity and ductility coefficient, the influence of the parameters on the seismic performance of the joints strengthened with tied and lock-anchored CFRP sheets was discussed.The influencing parameters included the ratio of stirrup , longitudinal CFRP sheets at the beam end and the amount of lateral shear CFRP at the beam and column end.The results showed that the tied and lock-anchored CFRP sheets could significantly improve the seismic performance of the joints.The maximum increase in ultimate bearing capacity and ductility coefficient of beam end was up to19.8% and 55.5% respectively.When others remained invariable, increasing the ratio of longitudinal CFRP sheets at the

  9. Association analysis of the ACTN3 R577X polymorphism and complex quantitative body composition and performance phenotypes in adolescent Greeks.

    Science.gov (United States)

    Moran, Colin N; Yang, Nan; Bailey, Mark E S; Tsiokanos, Athanasios; Jamurtas, Athanasios; MacArthur, Daniel G; North, Kathryn; Pitsiladis, Yannis P; Wilson, Richard H

    2007-01-01

    The functional allele (577R) of ACTN3, which encodes human alpha-actinin-3, has been reported to be associated with elite athletic status and with response to resistance training, while the nonfunctional allele (577X) has been proposed as a candidate metabolically thrifty allele. In a study of 992 adolescent Greeks, we show that there is a significant association (P=0.003) between the ACTN3 R577X polymorphism and 40 m sprint time in males that accounts for 2.3% of phenotypic variance, with the 577R allele contributing to faster times in an additive manner. The R577X polymorphism is not associated with other power phenotypes related to 40 m sprint, nor with an endurance phenotype. Furthermore, the polymorphism is not associated with obesity-related phenotypes in our population, suggesting that the 577X allele is not a thrifty allele, and thus the persistence of this null allele must be explained in other terms.

  10. Genomic cartography of varicella-zoster virus: a complete genome-based analysis of strain variability with implications for attenuation and phenotypic differences.

    Science.gov (United States)

    Tyler, S D; Peters, G A; Grose, C; Severini, A; Gray, M J; Upton, C; Tipples, G A

    2007-03-15

    In order to gain a better perspective on the true variability of varicella-zoster virus (VZV) and to catalogue the location and number of differences, 11 new complete genome sequences were compared with those previously in the public domain (18 complete genomes in total). Three of the newly sequenced genomes were derived from a single strain in order to assess variations that can occur during serial passage in cell culture. The analysis revealed that while VZV is relatively stable genetically it does posses a certain degree of variability. The reiteration regions, origins of replication and intergenic homopolymer regions were all found to be variable between strains as well as within a given strain. In addition, the terminal viral sequences were found to vary within and between strains specifically at the 3' end of the genome. Analysis of single nucleotide polymorphisms (SNPs) identified a total of 557 variable sites, 451 of which were found in coding regions and resulted in 187 different in amino acid substitutions. A comparison of the SNPs present in the two gE mutant strains, VZV-MSP and VZV-BC, suggested that the missense mutation in gE was primarily responsible for the accelerated cell spread phenotype. Some of the variations noted with high passage in cell culture are consistent with variations seen in the IE62 gene of the vaccine strains (S628G, R958G and I1260V) that may help in pinpointing variations essential for attenuation. Although VZV has been considered to be one of the most genetically stable human herpesviruses, this initial assessment of genomic VZV cartography provides insight into ORFs with previously unreported variations.

  11. Robust conductance of dumbbell molecular junctions with fullerene anchoring groups

    DEFF Research Database (Denmark)

    Markussen, Troels; Settnes, Mikkel; Thygesen, Kristian Sommer

    2011-01-01

    The conductance of a molecular wire connected to metallic electrodes is known to be sensitive to the atomic structure of the molecule-metal contact. This contact is to a large extent determined by the anchoring group linking the molecular wire to the metal. It has been found experimentally...... that a dumbbell construction with C60 molecules acting as anchors yields more well-defined conductances as compared to the widely used thiol anchoring groups. Here, we use density functional theory to investigate the electronic properties of this dumbbell construction. The conductance is found to be stable...... support the original motivation to achieve conductance values more stable towards changes in the structure of the molecule-metal contact leading to larger reproducibility in experiments. © 2011 American Institute of Physics....

  12. Optical Fiber Grating Sensor for Force Measurement of Anchor Cable

    Institute of Scientific and Technical Information of China (English)

    JIANG Desheng; FU Jinghua; LIU Shengchun; SUI Lingfeng; FU Rong

    2006-01-01

    The development of the sensor suitable for measuring large load stress to the anchor cable becomes an important task in bridge construction and maintenance. Therefore, a new type of optical fiber sensor was developed in the laboratory - optical fiber grating sensor for force measurement of anchor cable (OFBFMAC). No similar report about this kind of sensor has been found up to now in China and other countries. This sensor is proved to be an effective way of monitoring in processes of anchor cable installation, cable cutting, cable force regulation, etc, with the accurate and repeatable measuring results. Its successful application in the tie bar cable force safety monitoring for Wuhan Qingchuan bridge is a new exploration of optical fiber grating sensing technology in bridge tie bar monitoring system.

  13. Theoretical Insights into the Impact of Ru Catalyst Anchors on the Efficiency of Photocatalytic CO2 Reduction on Ta2O5.

    Science.gov (United States)

    Akimov, Alexey V; Jinnouchi, R; Shirai, S; Asahi, R; Prezhdo, Oleg V

    2015-06-18

    We present a computational study of the dynamical and electronic structure origins of the impact of anchoring groups, PO3H2, COOH, and OH, on the efficiency of photochemical CO2 reduction in Ru(di-X-bpy)(CO)2Cl2/Ta2O5 systems. Recent experimental studies indicate that the efficiency may not directly correlate with the driving force for electron transfer (ET) in these systems, prompting the need for further investigation of the role of anchor groups. Our analysis shows that there are at least two key roles of the anchor in determining the efficiency of CO2 reduction by the Ru complex. First, depending on local steric interactions, different tilting angles and their fluctuations may emerge for different anchors, affecting the magnitude of the donor-acceptor coupling. Second, depending on localization of acceptor states on the anchor, determined by the anchor's tendency to form conjugate subsystems, the yields of ET to the catalytic center may vary, directly affecting the photocatalytic efficiency. Finally, our calculations indicate that surface modeling with N-doping and many-body effects are needed to describe the ET process in the systems properly. N-doping imparts the Ta2O5 surface with a dipole moment, while Coulomb and exchange contributions to the electron-hole interaction can produce excitons that should be taken into account.

  14. Experience-based, body-anchored qualitative research interviewing

    DEFF Research Database (Denmark)

    Stelter, Reinhard

    2010-01-01

    Two theoretical constructs that lay the foundation for experience-based, body-anchored interviewing are presented: the first-person perspective and the concept of meaning. These theoretical concepts are concretized, first, by means of a methodological framework for experience-based, body......-anchored interviewing, and second, by an interview guide that explores a research participant's personal experience with mindfulness meditation. An excerpt from an interview is discussed to illustrate the advantages of this interview form, namely its value as a methodological instrument for qualitative research...... in areas such as traditional and holistic medicine, Western alternative and complementary medicine, nursing, psychotherapy, coaching, physiotherapy, movement arts, and physical education....

  15. Experience-based, body-anchored qualitative research interviewing.

    Science.gov (United States)

    Stelter, Reinhard

    2010-06-01

    Two theoretical constructs that lay the foundation for experience-based, body-anchored interviewing are presented: the first-person perspective and the concept of meaning. These theoretical concepts are concretized, first, by means of a methodological framework for experience-based, body-anchored interviewing, and second, by an interview guide that explores a research participant's personal experience with mindfulness meditation. An excerpt from an interview is discussed to illustrate the advantages of this interview form, namely its value as a methodological instrument for qualitative research in areas such as traditional and holistic medicine, Western alternative and complementary medicine, nursing, psychotherapy, coaching, physiotherapy, movement arts, and physical education.

  16. Addition of lipid substituents of mammalian protein glycosylphosphoinositol anchors.

    OpenAIRE

    Singh, N.; Zoeller, R A; Tykocinski, M. L.; Lazarow, P B; Tartakoff, A M

    1994-01-01

    A single metabolic path leading to synthesis of ether lipids is known in animal cells, the major products of which are plasmalogens. To learn whether this peroxisomal path is also responsible for the synthesis of base-resistant lipid components of glycosylphosphoinositol (GPI)-anchored membrane proteins, we have investigated the structure of anchor precursor mannolipids both in wild-type cells (CHO-K1 and a macrophage-like line, RAW 264.7) and in two corresponding mutant cells in which ether ...

  17. Current status of frameless anchored IUD for immediate intracesarean insertion.

    Science.gov (United States)

    Wildemeersch, Dirk; Goldstuck, Norman D; Hasskamp, Thomas

    2016-01-01

    Immediate postpartum intrauterine device (IUD) insertion deserves great attention as it can provide immediate, timely and convenient contraception plus the added benefit of preventing repeat unintended pregnancies. Although women post vaginal delivery can benefit from immediate post-placenta contraception, women undergoing Cesarean section clearly need contraception, as an inter-delivery interval shorter than 18 months places them at a high risk for uterine rupture. The main drawback of currently available framed IUD devices for immediate postpartum insertion of an IUD is their high expulsion and displacement rates when inserted immediately postpartum after both vaginal and Cesarean delivery. Current research suggests that a brief window of opportunity exists of 10 minutes for insertion of conventional IUDs after which time expulsion rates both immediately and over time are greatly enhanced. This paper summarizes the current research conducted to overcome the expulsion problems associated with conventional T-shaped devices as well as through the use of an anchored frameless device. In the 1970s and 1980s, attempts were made to solve the expulsion problem by modifying existing devices, such as adding absorbable sutures (Delta-T) or additional appendages. These attempts proved to be clinically unsuccessful as the catgut suture added to the transverse arms did not provide sufficient resistance to prevent downward displacement and expulsion. An anchoring technique to suspend a copper IUD to the fundus of the uterus was developed in Belgium in the 1980s and has been the subject of extensive ongoing clinical research since 1985. Recently the frameless copper releasing anchor IUD, GyneFix, has been tested for postplacental insertion. Initially, the anchor was modified by the inclusion of a biodegradable cone which was added below the anchoring knot. Clinical studies confirmed the adequacy of this approach suggesting that it was technically possible to anchor an IUD

  18. Cluster analysis of bone microarchitecture from high resolution peripheral quantitative computed tomography demonstrates two separate phenotypes associated with high fracture risk in men and women.

    Science.gov (United States)

    Edwards, M H; Robinson, D E; Ward, K A; Javaid, M K; Walker-Bone, K; Cooper, C; Dennison, E M

    2016-07-01

    Osteoporosis is a major healthcare problem which is conventionally assessed by dual energy X-ray absorptiometry (DXA). New technologies such as high resolution peripheral quantitative computed tomography (HRpQCT) also predict fracture risk. HRpQCT measures a number of bone characteristics that may inform specific patterns of bone deficits. We used cluster analysis to define different bone phenotypes and their relationships to fracture prevalence and areal bone mineral density (BMD). 177 men and 159 women, in whom fracture history was determined by self-report and vertebral fracture assessment, underwent HRpQCT of the distal radius and femoral neck DXA. Five clusters were derived with two clusters associated with elevated fracture risk. "Cluster 1" contained 26 women (50.0% fractured) and 30 men (50.0% fractured) with a lower mean cortical thickness and cortical volumetric BMD, and in men only, a mean total and trabecular area more than the sex-specific cohort mean. "Cluster 2" contained 20 women (50.0% fractured) and 14 men (35.7% fractured) with a lower mean trabecular density and trabecular number than the sex-specific cohort mean. Logistic regression showed fracture rates in these clusters to be significantly higher than the lowest fracture risk cluster [5] (pfemoral neck areal BMD was significantly lower than cluster 5 in women in cluster 1 and 2 (p<0.001 for both), and in men, in cluster 2 (p<0.001) but not 1 (p=0.220). In conclusion, this study demonstrates two distinct high risk clusters in both men and women which may differ in etiology and response to treatment. As cluster 1 in men does not have low areal BMD, these men may not be identified as high risk by conventional DXA alone. PMID:27130873

  19. Anchors for effectors: subversion of phosphoinositide lipids by Legionella

    Directory of Open Access Journals (Sweden)

    Hubert eHilbi

    2011-04-01

    Full Text Available The facultative intracellular pathogen Legionella pneumophila replicates in free-living amoebae and macrophages within a distinct compartment, the Legionella-containing vacuole (LCV. LCV formation involves phosphoinositide (PI glycerolipids, which are key factors controlling vesicle trafficking pathways and membrane dynamics of eukaryotic cells. To govern the interactions with host cells, L. pneumophila employs the Icm/Dot type IV secretion system and more than 250 translocated effector proteins that presumably subvert host signaling and vesicle trafficking pathways. Some of the effector proteins anchor through distinct PIs to the cytosolic face of LCVs and promote the interaction with host vesicles and organelles, catalyze guanine nucleotide exchange of small GTPases, or bind to PI-metabolizing enzymes, such as OCRL1. The PI 5-phosphatase OCRL1 and its Dictyostelium homologue Dd5P4 restrict intracellular growth of L. pneumophila. Moreover, OCRL1/Dd5P4, PI 3-kinases (PI3Ks and PI4KIIIβ regulate LCV formation and localization of the effector protein SidC, which selectively decorates the LCV membrane. SidC or its 20 kDa P4C fragment are robust and specific probes for phosphatidylinositol-4-phosphate, and SidC can be targeted to purify intact LCVs by immuno-magnetic separation. Taken together, bacterial PI-binding effectors as well as host PIs and PI-modulating enzymes play a pivotal role for intracellular replication of L. pneumophila, and the PI-binding effectors are valuable tools for the analysis of eukaryotic PI lipids.

  20. [Dactylogyrids (Monogenea: Dactylogyridea) with an unusual number of anchors, their origin and phylogenetic significance. Reference data].

    Science.gov (United States)

    Gerasev, P I

    2002-01-01

    It is considered that in Anacanthorinae, Markewitschiana and Pseudacolpenteron pavlovskii (Dactylogyridae s. s.) the anchors are absent originally. In the other dactylogyrids (s. l.) without anchors (Pseudacolpenteron ignotus; Acolpenteron; Anonchohaptor-Icelanchohaptor; Kritskyia-Telethecium-Pavanelliela) these structures are lost. In related genera Rhinoxenus and Nanotrema the dorsal pair of anchors is transformed into the "spikes"; in Heteronchocleidinae there is one anchor; in Trinigyrus and Schilbetrematoides are two anchors; and in Urogyrus three anchors are reduced. But in Rhinonaster, Cacatyocotyle, Callceostomella, Neocalseostoma elongatum and Pseudodactylogyridae the presence of one pair of ventral "peduncular" or "haptoral" anchors appear to be the original state. For Anacanthorinae and Dactylogyridae s. s. the presence of 18-16 hooks, original lacking of anchors, appearance of one pair of them, evolutionary development and subsequent reduction of these structures are characteristic. In the dactylogyrids (s. l.) having two pairs of anchors and 14 hooks, one pair of the anchors is present originally, then usually the second dorsal pair grows up, and finally, the reduction of a part of anchors or all the anchors is possible. In the 16-hooked dactylogyrids (s. l.) having two pairs of anchors (Tetraonchinea, Amphibdellainea, Neodactylodiscinea) the original lacking or reduction of the anchors is not reported. The author considers, that it is unwarranted to unite all dactylogyrids (s. l.) without anchors into the superorder Ananchorea Malmberg, 1990 or to postulate the original presence of the two pairs of ventral anchors in this group. It is also impossible to unit all dactylogyrids (s. l.) having 0-4 anchors and 18-14 hooks into Dactylogyridae sensu Boeger et Kritsky, 1993. PMID:12070963