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Sample records for comparative md analysis

  1. Comparative MD analysis of the stability of transthyretin providing insight into the fibrillation mechanism

    DEFF Research Database (Denmark)

    Sørensen, Jesper; Hamelberg, Donald; Schiøtt, Birgit

    2007-01-01

    used all-atom MD simulation and free energy calculations to study the initial phase of this process. We have calculated the free energy changes of the initial tetramer dissociation under different conditions and in the presence of thyroxine. We show that tetramer formation is indeed only...

  2. Comparative analysis of termoscale effects, isomerization and stability of TM-nanoclusters (Pd,Ni,Fe and Si in dependence on interatomic potentials. MD-simulations

    Directory of Open Access Journals (Sweden)

    Galashev А.Е.

    2011-05-01

    Full Text Available Basing on the MD-simulated data the comparison of physicochemical properties of TM-nanoclusters (Pd,Ni,Fe, and Si-nanoparticles has been carried on in the purpose to understand the specificity of structure changes in depending on nature of interatomic bonds and initial structures (fcc, bcc, icosahedral – Ih. MDsimulation of thermic evolution including melting of TM- and Si- clusters was carried on up to 2000K.

  3. THE COMPARATIVE ECONOMIC-MATHEMATICAL ANALYSIS OF EFFICIENCY OF APPLICATION ON THE ACW OF THE ULTRALIGHT X-32 "BEKAS" PLANE AND THE MOTOR HANG-GLIDER MD-50S

    Directory of Open Access Journals (Sweden)

    2016-01-01

    Full Text Available In this article the comparative economic-mathematical analysis of size of profit per a flight hour on use at the avia- tion-chemical works (ACW of two types of super light aircraft X-32 “Bekas” and a glider MD-50S which are widely used when cultivating farmland nowadays. The list of indicators which are used while carrying out the comparative technical and economic analysis of considered ultralights is given at the beginning of the article. Further their numerical values nec- essary for computations are given. The mathematical formula for calculation with use of the given data of profit on carrying out ACW with use of the considered models of the aircraft equipment is presented. Values of profit are calculated by means of the tabular Microsoft Excel editor for various values of cultivated farmland length and distance of approach from airfield to the cultivated plot. The applied values of cultivated farmland length lie in the range from 0.5 to 10 kilometers, and ap-proach distances vary from 0.5 to 2 kilometers respectively. Calculations are executed for each of two compared ultralights and results are given in a tabular form respectively. On the basis of the analysis of the obtained tabular data conclusions are drawn under what values of input and variables in the form of farmland length and distance of approach profit margin for each of two ultralights will be larger or smaller in comparison with each other. In the final part of article total conclusions about the most preferable ultralight of two compared for operation in fields of various configuration during ACW are drawn. At the end recommendations to the aviation enterprises about application of the most expedient option of ultralight for obtaining bigger profit margin on carrying out ACW.

  4. MD-SeeGH: a platform for integrative analysis of multi-dimensional genomic data

    Directory of Open Access Journals (Sweden)

    Ng Raymond T

    2008-05-01

    Full Text Available Abstract Background Recent advances in global genomic profiling methodologies have enabled multi-dimensional characterization of biological systems. Complete analysis of these genomic profiles require an in depth look at parallel profiles of segmental DNA copy number status, DNA methylation state, single nucleotide polymorphisms, as well as gene expression profiles. Due to the differences in data types it is difficult to conduct parallel analysis of multiple datasets from diverse platforms. Results To address this issue, we have developed an integrative genomic analysis platform MD-SeeGH, a software tool that allows users to rapidly and directly analyze genomic datasets spanning multiple genomic experiments. With MD-SeeGH, users have the flexibility to easily update datasets in accordance with new genomic builds, make a quality assessment of data using the filtering features, and identify genetic alterations within single or across multiple experiments. Multiple sample analysis in MD-SeeGH allows users to compare profiles from many experiments alongside tracks containing detailed localized gene information, microRNA, CpG islands, and copy number variations. Conclusion MD-SeeGH is a new platform for the integrative analysis of diverse microarray data, facilitating multiple profile analyses and group comparisons.

  5. MD5算法的分析和改进%Analysis and Improvement of .MD5 Algorithm

    Institute of Scientific and Technical Information of China (English)

    么丽颖

    2011-01-01

    首先研究了MD5算法,并总结了MD5算法的特点及性能,在研究MD5算法的基础之上,提出了MD5改进加密算法.最后,对MD5算法与MD5改进算法对应于相关数据、性能进行了比较.%At first , MD5 algorithm is researched, and the characteristic and capability of the MD5 are summaried in the paper. The improved MD5 algorithm is put forward based on the research of the MDS. At last, the contrast between MD5 algorithm and the improved MD5 algorithm in related datum and capability are put forward.

  6. 苹果光响应转录因子MdHY5表达及蛋白互作分析%Expression and Protein Interaction Analysis of Light Responsive bZIP Transcription FactorMdHY5

    Institute of Scientific and Technical Information of China (English)

    李慧峰; 王小非; 冉昆; 何平; 王海波; 李林光

    2014-01-01

    Objective]Cloning of the key light responsive bZIP (Basic-leucine zipper) transcription factors fromMalus domestica Borkh, gene expression and protein interaction analysis, which were determined to identify the function and molecular mechanism ofMdHY5.[Method]First, semi-quantitative primers used for detecting expression levels were designed from the apple in order to identify the light-responsivebZIP genes. Differentially screened and identified a light responsive gene named as MdHY5 based on comparative analysis of homologous. Subsequently, the primers were designed to clone theMdHY5 gene. Phylogenetic relationship including the MdHY5 protein withArabidopsis bZIP proteins was analyzed using MEGA5 and the multiple alignment of bZIP domain was constructed, while the conserved protein domain was predicted, spatio expression analysis was made to detect the MdHY5 in different organs. The expression ofMdHY5 in response to various light qualities was detected by semi-quantitative RT-PCR based on promoter prediction analysis, combined with theArabidopsis microarray database. Finally,MdHY5 gene was inserted into the prokaryotic vectorpGEX-4T-1, and IPTG was used to induce the fusion protein expression inE.coliBL21. Then the fusion protein was purified and detected by Western blot. The interaction between MdHY5 and MdCOP1 was detected by pull down assay.[Result]A bZIP transcription factor was isolated in apple through the light response analysis. Phylogenetic relationship showed that MdHY5 is a homolog ofArabidopsis AtHY5. This gene is located on chromosome 12 of apple genome, with the gene number MDP0000586302,MdHY5 gene contains four exons and three introns in genome structure, which is similar to its homolog. The length of the cDNA is 1 112 bp, with 214 bp in the 5′ untranslated region, 403 bp in 3′ untranslated region, and 495 bp of open reading frame, which encode a 164 amino acid residues. MdHY5 contains a leucine zipper structure typical (bZIP domain) in the C

  7. Equilibrium Molecular Dynamics (MD Simulation Study of Thermal Conductivity of Graphene Nanoribbon: A Comparative Study on MD Potentials

    Directory of Open Access Journals (Sweden)

    Asir Intisar Khan

    2015-12-01

    Full Text Available The thermal conductivity of graphene nanoribbons (GNRs has been investigated using equilibrium molecular dynamics (EMD simulation based on Green-Kubo (GK method to compare two interatomic potentials namely optimized Tersoff and 2nd generation Reactive Empirical Bond Order (REBO. Our comparative study includes the estimation of thermal conductivity as a function of temperature, length and width of GNR for both the potentials. The thermal conductivity of graphene nanoribbon decreases with the increase of temperature. Quantum correction has been introduced for thermal conductivity as a function of temperature to include quantum effect below Debye temperature. Our results show that for temperatures up to Debye temperature, thermal conductivity increases, attains its peak and then falls off monotonically. Thermal conductivity is found to decrease with the increasing length for optimized Tersoff potential. However, thermal conductivity has been reported to increase with length using 2nd generation REBO potential for the GNRs of same size. Thermal conductivity, for the specified range of width, demonstrates an increasing trend with the increase of width for both the concerned potentials. In comparison with 2nd generation REBO potential, optimized Tersoff potential demonstrates a better modeling of thermal conductivity as well as provides a more appropriate description of phonon thermal transport in graphene nanoribbon. Such comparative study would provide a good insight for the optimization of the thermal conductivity of graphene nanoribbons under diverse conditions.

  8. Molecular Cloning and Expression Analysis of a Hexokinase Gene, MdHXK1 in Apple

    Directory of Open Access Journals (Sweden)

    Jin Zhao

    2016-03-01

    Full Text Available A hexokinase gene named MdHXK1 (MDP0000309677 was cloned from ‘Gala’ apple (Malus × domestica Borkh.. Sequence analysis showed that the MdHXK1 gene was 1 497 bp long and encoded 499 amino acids. The predicted molecular mass of this protein was 54.05 kD, and the pI was 5.76. A phylogenetic tree indicated apple MdHXK1 exhibited the highest sequence similarity to Pyrus bretschneideri PbHXK1. Analysis of the functional domain showed that the MdHXK1 protein included two conserved kinase domains. The prediction of subcellular localization suggested that the MdHXK1 protein was mainly localized in the cytoplasm. There was an indication that MdHXK1 existed as one copy in the apple genome by Southern blotting. Silico analysis suggested that the promoter sequence contained several typical cis-acting elements, including defense, sugar signaling and phytohormone responsive elements. Quantitative real-time PCR analysis demonstrated that the MdHXK1 gene was mainly expressed in stem and flower tissues. During the development of apple fruits, the expression of the MdHXK1 gene initially increased and then decreased. The changes on Glc phosphorylation relative activity and glucose concentration showed the same trend. In addition, the expression of this gene was induced by salt stress, low temperature, and abscisic acid (ABA. Finally, we obtained and purified the fused MdHXK1 protein by recombinant prokaryotic expression. Studies have demonstrated that MdHXK1 may participate in sugar metabolism in apple fruits. Enzyme encoded by MdHXK1 is a key factor in the mediation of sugar accumulation. Recently, researchers on hexokinase at home and abroad mainly focused on model plants, such as Arabidopsis, tobacco and rice, but orchard fruit like apple were underresearched. Our research established the foundation for the further study of the functions of MdHXK1.

  9. Estimation of Hydrogen-Exchange Protection Factors from MD Simulation Based on Amide Hydrogen Bonding Analysis

    Science.gov (United States)

    Park, In-Hee; Venable, John D.; Steckler, Caitlin; Cellitti, Susan E.; Lesley, Scott A.; Spraggon, Glen; Brock, Ansgar

    2015-01-01

    Hydrogen exchange (HX) studies have provided critical insight into our understanding of protein folding, structure and dynamics. More recently, Hydrogen Exchange Mass Spectrometry (HX-MS) has become a widely applicable tool for HX studies. The interpretation of the wealth of data generated by HX-MS experiments as well as other HX methods would greatly benefit from the availability of exchange predictions derived from structures or models for comparison with experiment. Most reported computational HX modeling studies have employed solvent-accessible-surface-area based metrics in attempts to interpret HX data on the basis of structures or models. In this study, a computational HX-MS prediction method based on classification of the amide hydrogen bonding modes mimicking the local unfolding model is demonstrated. Analysis of the NH bonding configurations from Molecular Dynamics (MD) simulation snapshots is used to determine partitioning over bonded and non-bonded NH states and is directly mapped into a protection factor (PF) using a logistics growth function. Predicted PFs are then used for calculating deuteration values of peptides and compared with experimental data. Hydrogen exchange MS data for Fatty acid synthase thioesterase (FAS-TE) collected for a range of pHs and temperatures was used for detailed evaluation of the approach. High correlation between prediction and experiment for observable fragment peptides is observed in the FAS-TE and additional benchmarking systems that included various apo/holo proteins for which literature data were available. In addition, it is shown that HX modeling can improve experimental resolution through decomposition of in-exchange curves into rate classes, which correlate with prediction from MD. Successful rate class decompositions provide further evidence that the presented approach captures the underlying physical processes correctly at the single residue level. This assessment is further strengthened in a comparison of

  10. Molecular cloning and functional analysis of a blue light receptor gene MdCRY2 from apple (Malus domestica).

    Science.gov (United States)

    Li, Yuan-Yuan; Mao, Ke; Zhao, Cheng; Zhao, Xian-Yan; Zhang, Rui-Fen; Zhang, Hua-Lei; Shu, Huai-Rui; Hao, Yu-Jin

    2013-04-01

    MdCRY2 was isolated from apple fruit skin, and its function was analyzed in MdCRY2 transgenic Arabidopsis. The interaction between MdCRY2 and AtCOP1 was found by yeast two-hybrid and BiFC assays. Cryptochromes are blue/ultraviolet-A (UV-A) light receptors involved in regulating various aspects of plant growth and development. Investigations of the structure and functions of cryptochromes in plants have largely focused on Arabidopsis (Arabidopsis thaliana), tomato (Solanum lycopersicum), pea (Pisum sativum), and rice (Oryza sativa). However, no data on the function of CRY2 are available in woody plants. In this study, we isolated a cryptochrome gene, MdCRY2, from apple (Malus domestica). The deduced amino acid sequences of MdCRY2 contain the conserved N-terminal photolyase-related domain and the flavin adenine dinucleotide (FAD) binding domain, as well as the C-terminal DQXVP-acidic-STAES (DAS) domain. Relationship analysis indicates that MdCRY2 shows the highest similarity to the strawberry FvCRY protein. The expression of MdCRY2 is induced by blue/UV-A light, which represents a 48-h circadian rhythm. To investigate the function of MdCRY2, we overexpressed the MdCRY2 gene in a cry2 mutant and wild type (WT) Arabidopsis, assessed the phenotypes of the resulting transgenic plants, and found that MdCRY2 functions to regulate hypocotyl elongation, root growth, flower initiation, and anthocyanin accumulation. Furthermore, we examined the interaction between MdCRY2 and AtCOP1 using a yeast two-hybrid assay and a bimolecular fluorescence complementation assay. These data provide functional evidence for a role of blue/UV-A light-induced MdCRY2 in controlling photomorphogenesis in apple.

  11. Wettability of graphitic-carbon and silicon surfaces: MD modeling and theoretical analysis

    Science.gov (United States)

    Ramos-Alvarado, Bladimir; Kumar, Satish; Peterson, G. P.

    2015-07-01

    The wettability of graphitic carbon and silicon surfaces was numerically and theoretically investigated. A multi-response method has been developed for the analysis of conventional molecular dynamics (MD) simulations of droplets wettability. The contact angle and indicators of the quality of the computations are tracked as a function of the data sets analyzed over time. This method of analysis allows accurate calculations of the contact angle obtained from the MD simulations. Analytical models were also developed for the calculation of the work of adhesion using the mean-field theory, accounting for the interfacial entropy changes. A calibration method is proposed to provide better predictions of the respective contact angles under different solid-liquid interaction potentials. Estimations of the binding energy between a water monomer and graphite match those previously reported. In addition, a breakdown in the relationship between the binding energy and the contact angle was observed. The macroscopic contact angles obtained from the MD simulations were found to match those predicted by the mean-field model for graphite under different wettability conditions, as well as the contact angles of Si(100) and Si(111) surfaces. Finally, an assessment of the effect of the Lennard-Jones cutoff radius was conducted to provide guidelines for future comparisons between numerical simulations and analytical models of wettability.

  12. Novel 3D/VR interactive environment for MD simulations, visualization and analysis.

    Science.gov (United States)

    Doblack, Benjamin N; Allis, Tim; Dávila, Lilian P

    2014-12-18

    The increasing development of computing (hardware and software) in the last decades has impacted scientific research in many fields including materials science, biology, chemistry and physics among many others. A new computational system for the accurate and fast simulation and 3D/VR visualization of nanostructures is presented here, using the open-source molecular dynamics (MD) computer program LAMMPS. This alternative computational method uses modern graphics processors, NVIDIA CUDA technology and specialized scientific codes to overcome processing speed barriers common to traditional computing methods. In conjunction with a virtual reality system used to model materials, this enhancement allows the addition of accelerated MD simulation capability. The motivation is to provide a novel research environment which simultaneously allows visualization, simulation, modeling and analysis. The research goal is to investigate the structure and properties of inorganic nanostructures (e.g., silica glass nanosprings) under different conditions using this innovative computational system. The work presented outlines a description of the 3D/VR Visualization System and basic components, an overview of important considerations such as the physical environment, details on the setup and use of the novel system, a general procedure for the accelerated MD enhancement, technical information, and relevant remarks. The impact of this work is the creation of a unique computational system combining nanoscale materials simulation, visualization and interactivity in a virtual environment, which is both a research and teaching instrument at UC Merced.

  13. Property Analysis of Exfoliated Graphite Nanoplatelets Modified Asphalt Model Using Molecular Dynamics (MD Method

    Directory of Open Access Journals (Sweden)

    Hui Yao

    2017-01-01

    Full Text Available This Molecular Dynamics (MD simulation paper presents a physical property comparison study between exfoliated graphite nanoplatelets (xGNP modified and control asphalt models, including density, glass transition temperature, viscosity and thermal conductivity. The three-component control asphalt model consists of asphaltenes, aromatics, and saturates based on previous references. The xGNP asphalt model was built by incorporating an xGNP and control asphalt model and controlling mass ratios to represent the laboratory prepared samples. The Amber Cornell Extension Force Field (ACEFF was used with assigned molecular electro-static potential (ESP charge from NWChem analysis. After optimization and ensemble relaxation, the properties of the control and xGNP modified asphalt models were computed and analyzed using the MD method. The MD simulated results have a similar trend as the test results. The property analysis showed that: (1 the density of the xGNP modified model is higher than that of the control model; (2 the glass transition temperature of the xGNP modified model is closer to the laboratory data of the Strategic Highway Research Program (SHRP asphalt binders than that of the control model; (3 the viscosities of the xGNP modified model at different temperatures are higher than those of the control model, and it coincides with the trend in the laboratory data; (4 the thermal conductivities of the xGNP modified asphalt model are higher than those of the control asphalt model at different temperatures, and it is consistent with the trend in the laboratory data.

  14. Development of the Multi-Dimensional Analysis of Patient Outcome Predictions (MD.POP) during medical encounters.

    Science.gov (United States)

    Ménard, Catherine; Libert, Yves; Canivet, Delphine; Van Achte, Laetitia; Farvacques, Christine; Liénard, Aurore; Merckaert, Isabelle; Reynaert, Christine; Slachmuylder, Jean-Louis; Durieux, Jean-François; Klastersky, Jean; Razavi, Darius

    2017-07-09

    Our first objective was to develop the Multi-Dimensional analysis of Patient Outcome Predictions (MD.POP), an interaction analysis system that assesses how HCPs discuss precisely and exclusively patient outcomes during medical encounters. The second objective was to study its interrater reliability. The MD.POP was developed by consensus meetings. Forty simulated medical encounters between physicians and an actress portraying a patient were analysed. Interrater reliability analysis was conducted on 20 of those simulated encounters. The MD.POP includes six dimensions: object, framing, value, domain, probability and form of POP. The coding method includes four steps: 1) transcription of the encounter, 2) POP identification, 3) POP dimension coding and 4) POP scoring. Descriptive analyses show that the MD.POP is able to describe verbal expressions addressing the patient's outcomes. Statistical analyses show excellent interrater reliability (Cohen's Kappa ranging from 0.92 to 0.94). The MD.POP is a reliable interaction analysis system that assesses how HCPs discuss patient medical, psychological or social outcomes during medical encounters. The MD.POP provides a measure for researchers to study how HCPs communicate with patients about potential outcomes. Results of such studies will allow to provide recommendations to improve HCP's communication about patients' outcomes. Copyright © 2017 Elsevier B.V. All rights reserved.

  15. AstroMD. A multi-dimensional data analysis tool for astrophysical simulations

    CERN Document Server

    Becciani, U; Gheller, C; Calori, L; Buonomo, F; Imboden, S

    2000-01-01

    Over the past few years, the role of visualization for scientific purpose has grown up enormously. Astronomy makes an extended use of visualization techniques to analyze data, and scientific visualization has became a fundamental part of modern researches in Astronomy. With the evolution of high performance computers, numerical simulations have assumed a great role in the scientific investigation, allowing the user to run simulation with higher and higher resolution. Data produced in these simulations are often multi-dimensional arrays with several physical quantities. These data are very hard to manage and to analyze efficiently. Consequently the data analysis and visualization tools must follow the new requirements of the research. AstroMD is a tool for data analysis and visualization of astrophysical data and can manage different physical quantities and multi-dimensional data sets. The tool uses virtual reality techniques by which the user has the impression of travelling through a computer-based multi-dim...

  16. SECURITY ANALYSIS ON MD5 AND ITS APPLICATION%MD5安全性分析及其应用

    Institute of Scientific and Technical Information of China (English)

    谭剑鸣; 徐建华; 汪崇华

    2002-01-01

    本文详细论述了MD5报文分解函数对文件签名的工作原理,剖析了MD5的安全性,针对具体的应用提出了使用MD5与RSA结合来解决数字签名的完整方案.文章的最后对MD5在PGP数字签名中的具体应用进行了分析讨论.

  17. The MD5 Technical Analysis and Improvement Measures%MD5技术解析及改进措施

    Institute of Scientific and Technical Information of China (English)

    窦立莉

    2010-01-01

    随着网络的迅速普及,信息加密技术的发展对保障网络安全有着重大的作用与意义.本文对MD5 这种单向加密算法进行了简要描述,对MD5 算法的原理进行了深入分析,并提出了MD5 码的多种改进措施.

  18. MD5算法的过程分析及其C#实现%Process Analysis of MD5 Algorithm and Its C# realization

    Institute of Scientific and Technical Information of China (English)

    杜昌钰

    2008-01-01

    文章对MD5即"Message-Digest Algorithm 5(报文流行的C#对8D5算法进行了具体的实现,给出了一个具体的C#加密实例.虽然MD5因王小云教授在2004国际密码学会议(Crypto'2004)上发表的论文受到了前所未有的冲击,但MD5在一些非关键领域应用还是相当广泛.最后还提出了一些针对MD5现状的解决对策和建议.

  19. Analysis and improvement of preimage attack on MD-4.%MD-4原象攻击的分析与改进

    Institute of Scientific and Technical Information of China (English)

    阎娜; 李梦东; 陈少晖

    2011-01-01

    首先分析了Leurent提出的MD-4原象攻击方法,该方法利用MD-4布尔函数的吸收性质,迭代函数的可逆性以及消息扩展方式的特殊性,首先形成伪原象攻击,之后利用基于树的方法将伪原象转变为原象攻击.采用随机图的方法,对其后一部分进行了改进,提高了攻击效率,将复杂度从2102降低到298.%The preimage attack of MD-4 is discussed. Leurent's method explores chiefly three properties of MD-4:The absorption properties of boolean function, reversibility of the iterative process and specificity of message expansion. After their pseudo preimage attack a tree-based method is followed to transform pseudo preimage to true preimage.Tree-basod method is replaced with random graph method. The complexity of the attack reduces to 298 from 2102.

  20. Injection MD

    CERN Document Server

    Bartmann, W; Bracco, C; Drosdal, L; Gianfelice, E; Goddard, B; Kain, V; Papaphilippou, Y; Vanbavinckhove, G

    2012-01-01

    This note summarizes the results obtained at injection during the 2nd MD block and the floating MD block in July. Highlights are presented for injection in the LHC with the Q20 SPS optics, influence of the supercycle and injection with 25 ns bunch spacing. Beams were successfully injected into the LHC using the Q20 optics [1, 3]. Small corrections were needed to steer the beam in the transfer lines. Dispersion measurements were conducted for both beams. The horizontal normalized dispersion in TI2 was a factor 2 smaller for Q20 with respect to Q26, for TI8 on the other hand the opposite was observed. The results for injection loss dependency on super cycle composition show only a small increase in losses for beam 2. The losses observed must therefore mainly come from other sources such as shot-by-shot stability or quality of scraping. For the injection with 25 ns bunch spacing bunches were injected for both beams. For B1 up to the maximum of 288 bunches. For B2 on the other only up to 144 bunches were injected...

  1. 柱型苹果GRAS基因家族MdSCR的克隆与生物信息学分析%Cloning and Bioinformatic Analysis of MdSCR Gene of GRAS Gene Family in Columnar Apple

    Institute of Scientific and Technical Information of China (English)

    韩菲; 戴洪义; 张玉刚

    2012-01-01

    以“富士×特拉蒙”杂交后代柱型株系新梢为试材,用同源克隆方法,得到了柱型苹果GRAS基因家族的MdSCR基因,开放阅读框(ORF)长度为1458bp,编码486个氨基酸,推测其蛋白质分子质量为54.894kD,等电点(pI)为5.96,具有GRAS基因家族典型结构域.MdSCR基因与毛果杨(Populus trichocarpa)GRAS转录因子的氨基酸序列具有67.8%的相似性,与江南卷柏(Selaginella moellendorffii)、葡萄(Vitis vinifera)、大豆(Glycine max)的SCARECROW-like氨基酸序列均有58.5%以上的相似性.氨基酸聚类分析表明,苹果和毛果杨、江南卷柏聚类关系最近,其次是葡萄,关系最远的是欧洲赤松;生物信息学分析表明,MdSCR的蛋白质二级结构有208个α一螺旋,54个延伸链和224个无规则折叠区.%The shoot tips of columnar apple progeny of ' Fuji x Telamon' were used as experimental materials for cloning MdSCR gene,which belonged to GRAS transcription factors gene family. The open reading flame (ORF) of MdSCR was 1464bp,encoding 486 amino acids,and the estimated molecular weight and isoelectric point (pI) of trfe putative protein were 54. 894 kD and 5. 96. The results indicated that MdSCR had highly conserved GRAS domain. MdSCR has 67. 8% amino acid sequence similarity with GRAS transcription factors of Populus trichocarpa, and has more than 58. 85% amino acid sequence similarity with GRAS transcription factors of Selaginella moellen-dorffii, grape and soybean. Amino acids cluster analysis showed that apple and Populus trichocarpa, Selaginella moellendorffii had the closest clustering relations, and followed by grape, the furthest was Pinus sylvestris. Bioinfor-matics analysis showed that the protein secondary structure of MdSCR has 208 alpha helix,54 extended strand,and 224 random coils.

  2. Structural and Dynamic Analysis on IDPs by Modified AWSEM-MD

    Science.gov (United States)

    Wu, Hao; Papoian, Garegin; Papoian Theoretical Biophysics Group Team

    Unlike globular proteins, intrinsically disordered proteins (IDPs) lack both secondary and tertiary structures and can play key roles in various biological processes, including transcriptional regulation, molecular recognition and cellular signaling. These functions can be potentially elucidated by structural heterogeneity of IDPs. Because of their flexibility and disordered nature, it has been difficult to investigate IDPs both computationally and experimentally. In particular, it is desirable to develop coarse-grained, yet accurate models of IDPs, such that simulations exploring sufficient conformational ensembles could be carried out within feasible times. To achieve this goal, we modified the associative memory, water mediated, structure and energy model (AWSEM-MD), which is typically used for folding of globular proteins or binding studies. We tested modified AWSEM-MD on several well-studied IDPs and found the transient secondary structure propensity is consistent with NMR experimental results. The rugged free energy landscapes obtained also show structural heterogeneity of these IDPs. Our proposed extension of AWSEM-MD may allow simulating a wider range of IDPs with high accuracy and computational efficiency.

  3. mdRNA-Seq analysis of marine microbial communities from the northern Red Sea

    Science.gov (United States)

    Hou, Shengwei; Pfreundt, Ulrike; Miller, Dan; Berman-Frank, Ilana; Hess, Wolfgang R.

    2016-01-01

    Metatranscriptomic differential RNA-Seq (mdRNA-Seq) identifies the suite of active transcriptional start sites at single-nucleotide resolution through enrichment of primary transcript 5′ ends. Here we analyzed the microbial community at 45 m depth at Station A in the northern Gulf of Aqaba, Red Sea, during 500 m deep mixing in February 2012 using mdRNA-Seq and a parallel classical RNA-Seq approach. We identified promoters active in situ for five different pico-planktonic genera (the SAR11 clade of Alphaproteobacteria, Synechococcus of Cyanobacteria, Euryarchaeota, Thaumarchaeota, and Micromonas as an example for picoeukaryotic algae), showing the applicability of this approach to highly diverse microbial communities. 16S rDNA quantification revealed that 24% of the analyzed community were group II marine Euryarchaeota in which we identified a highly abundant non-coding RNA, Tan1, and detected very high expression of genes encoding intrinsically disordered proteins, as well as enzymes for the synthesis of specific B vitamins, extracellular peptidases, carbohydrate-active enzymes, and transport systems. These results highlight previously unknown functions of Euryarchaeota with community-wide relevance. The complementation of metatranscriptomic studies with mdRNA-Seq provides substantial additional information regarding transcriptional start sites, promoter activities, and the identification of non-coding RNAs. PMID:27759035

  4. A comparative evaluation of the protective efficacy of rMd5deltaMeq and CVI988/ Rispens against a vv+ strain of Marek's disease virus infection in a series of recombinant congenic strains of White Leghorn chickens.

    Science.gov (United States)

    Chang, Shuang; Ding, Zhuang; Dunn, John R; Lee, Lucy F; Heidari, Mohammad; Song, Jiuzhou; Ernst, Catherine W; Zhang, Huanmin

    2011-09-01

    Marek's disease (MD) is a lymphoproliferative disease of domestic chickens caused by a highly infectious, oncogenic alpha-herpesvirus known as Marek's disease virus (MDV). MD is presently controlled by vaccination. Current MD vaccines include attenuated serotype 1 strains (e.g., CVI988/Rispens), avirulent serotype 2 (SB-1), and serotype 3 (HVT) MDV strains. In addition, recombinant MDV strains have been developed as potential new and more efficient vaccines to sustain the success of MD control in poultry. One of the candidate recombinant MDV strains, named rMd5deltaMeq, was derived from Md5, a very virulent strain of MDV lacking the MDV oncogene Meq. Our earlier reports suggest that rMd5deltaMeq provided protection equally well or better than commonly used MD vaccines in experimental and commercial lines of chickens challenged with very virulent plus (vv+) strains of MDV. In this study, maternal antibody-positive (trial 1) and negative (trial 2) chickens from a series of relatively MD resistant lines were either vaccinated with the rMd5deltaMeq or CVI988/Rispens followed by infection of a vv+ strain of MDV, 648A, passage 10. This report presents experimental evidence that the rMd5deltaMeq protected significantly better than the CVI988/Rispens (P < 0.01) in the relatively resistant experimental lines of chickens challenged with the vv+ strain of MDV. Together with early reports, the rMd5deltaMeq appeared to provide better protection, comparing with the most efficacious commercially available vaccine, CVI988/Rispens, for control of MD in lines of chickens regardless of their genetic background.

  5. Explicit Nonlinear Analysis of Bird Striking Material Composite Plate Based md.nastran%运用md.nastran的鸟撞复合材料板显示非线性分析

    Institute of Scientific and Technical Information of China (English)

    魏兴; 高明宝; 胡醒醒

    2011-01-01

    For the bird strike frequently, such as the high-rise building glass, the flying plane, etc, bird and material composite plate are consiste of a simplified model by Software MSC md.patran. By setting parameters, the md. nastran analysis file is submited to, and then got in to see the result files. In the end,the deformation of material composite plate at the moment and the stress distribution of material composite plate can be seen. The stress and displacement curve of bird strike are plotted also, which provides theory basis for material composite plate structure strength design.%针对鸟撞事件的频频发生,比如高层建筑物的玻璃,空中飞行的飞机等,通过msc.md.patran软件对鸟撞复合材料板建立简化模型,并得出提交到md.nastran中分析文件.进而得到结果文件,从而查看鸟撞时各个时刻复合材料板的变形,以及查看复合材料板的应力分布.并且可以绘制出应力与位移的时间历程曲线,为复合材料板结构强度设计提供理论依据.

  6. Molecular cloning and functional analysis of a UV-B photoreceptor gene, MdUVR8 (UV Resistance Locus 8), from apple.

    Science.gov (United States)

    Zhao, Cheng; Mao, Ke; You, Chun-Xiang; Zhao, Xian-Yan; Wang, Shu-Hui; Li, Yuan-Yuan; Hao, Yu-Jin

    2016-06-01

    UVR8 (UV Resistance Locus 8) is an ultraviolet-B (UV-B; 280-315nm) light receptor that is involved in regulating many aspects of plant growth and development. UV-B irradiation can increase the development of flower and fruit coloration in many fruit trees, such as grape, pear and apple. Previous investigations of the structure and functions of UVR8 in plants have largely focused on Arabidopsis. Here, we isolated the UVR8 gene from apple (Malus domestica) and analyzed its function in transgenic Arabidopsis. Genomic and protein sequence analysis showed that MdUVR8 shares high similarity with the AtUVR8 protein from Arabidopsis, including the conserved seven-bladed β-propeller, the C27 region, the 3 "GWRHT" motifs and crucial amino-acid residues (14 Trps, 2 Args). A point mutation prediction and three-dimensional structural analysis of MdUVR8 indicated that it has a similar structure to AtUVR8 and that the crucial residues are also important in MdUVR8. In terms of transcript levels, MdUVR8 expression was up-regulated by UV-B light, which suggests that its expression follows a 24-h circadian rhythm. Using heterologous expression of MdUVR8 in both uvr8-1 mutant and wild-type (WT) Arabidopsis, we found that MdUVR8 regulates hypocotyl elongation and gene expression under UV-B light. These data provide functional evidence for a role of MdUVR8 in controlling photomorphogenesis under UV-B light and indicate that the function of UVR8 is conserved between Arabidopsis and apple. Furthermore, we examined the interaction between MdUVR8 and MdCOP1 (constitutive photomorphogenic1) using a yeast two-hybrid assay and a co-immunoprecipitation assay. This interaction provides a direction for investigating the regulatory mechanisms of the UV-B-light pathway in apple.

  7. MD/MBA Students: An Analysis of Medical Student Career Choice

    Directory of Open Access Journals (Sweden)

    Windsor Westbrook Sherrill, Ph.D., MBA

    2004-01-01

    Full Text Available Background: An increasing number of medical schools are offering dual degree MD/MBA programs. Career choices and factors influencing students to enter these programs provide an indicator of the roles in which dual degree students will serve in health care as well as the future of dual degree programs. Purpose: Using career choice theory as a conceptual framework, career goals and factors influencing decisions to enter dual degree programs were assessed among dual degree medical students. Methods: Students enrolled at dual degree programs at six medical schools were surveyed and interviewed. A control group of traditional medical students was also surveyed. Results: Factors influencing students to seek both medical and business training are varied but are often related to a desire for leadership opportunities, concerns about change in medicine and job security and personal career goals. Most students expect to combine clinical and administrative roles. Conclusions: Students entering these programs do so for a variety of reasons and plan diverse careers. These findings can provide guidance for program development and recruitment for dual degree medical education programs

  8. MD/MBA Students: An Analysis of Medical Student Career Choice

    Directory of Open Access Journals (Sweden)

    Windsor Westbrook Sherrill, Ph.D., MBA

    2004-01-01

    Full Text Available Background: An increasing number of medical schools are offering dual degree MD/MBA programs. Career choices and factors influencing students to enter these programs provide an indicator of the roles in which dual degree students will serve in health care as well as the future of dual degree programs. Purpose: Using career choice theory as a conceptual framework, career goals and factors influencing decisions to enter dual degree programs were assessed among dual degree medical students. Methods: Students enrolled at dual degree programs at six medical schools were surveyed and interviewed. A control group of traditional medical students was also surveyed. Results: Factors influencing students to seek both medical and business training are varied but are often related to a desire for leadership opportunities, concerns about change in medicine and job security and personal career goals. Most students expect to combine clinical and administrative roles. Conclusions: Students entering these programs do so for a variety of reasons and plan diverse careers. These findings can provide guidance for program development and recruitment for dual degree medical education program

  9. A Preliminary Analysis of the Theoretical and Application Value of the MD--EW Framework Based Classroom%浅析MD-EW架构课堂的理论及应用价值

    Institute of Scientific and Technical Information of China (English)

    秦帅

    2011-01-01

    Students and teachers always use interactive electronie whiteboard and smart mobile devices at the same time. So people think about some new teaching methods both include interactive electronic whiteboard and smart mobile devices MD-EW (Mobile Device Electronic Whiteboard)framework is increasingly feasible for us to build a new type of classroom, which has a central device- electronic whiteboard and some other interactive tools-smart mobile devices. This classroom will be an expansion of the traditional classroom,and it shows some ideas of mobile learning. Through analysis we can see that it is a good try of conjunctive use of electronic whiteboard and mobile devices.%电子白板和移动设备的使用时常发生交汇,引发了人们对新型教学应用技巧的思考。以电子白板为教学服务核心,使用移动设备作为学生端交互工具的新型课堂架构(MD-EW架构)应运而生。MD-EW架构的课堂实现了从传统课堂到微型移动课堂的扩展,体现了泛在学习和移动学习的理念,是电子白板与智能移动设备联合应用的一次有益尝试。

  10. 苹果抗性相关的谷胱甘肽转移酶基因MdGSTU1的生物信息学和表达分析%Bioinformatics and Expression Analysis ofMdGSTU1 Gene Encoding a Resistance-Related Glutathione Transferase from Apple

    Institute of Scientific and Technical Information of China (English)

    安秀红; 徐锴; 厉恩茂; 李壮; 李敏; 刘志; 程存刚

    2014-01-01

    Objective]MdGSTU1 gene was amplified from apple (Malus domestica Borkh) by RT-PCR. The transcriptional level ofMdGSTU1 in different tissues and under various treatments were determined to identify the resistant function ofMdGSTU1 gene.[Method]ESTs derived from suppression subtractive hybridization were blasted in NCBI and one EST fragment associated with apple ring rot was separated. This EST was found to be aGST gene by blasting in apple genome database. The primers were designed to amplify the ORF and 3'UTR of this gene; subsequently, the phylogenetic tree of the GST proteins, including MdGSTU1 and the GST family proteins fromArabidopsis, was constructed using the neighbor-joining (NJ) method of MEGA 5.0 software. In addition, the protein molecular weight and isoelectric point were predicted with DNAMAN software, and the full length amino acid sequences were analyzed between MdGSTU1 and the GSTU subfamily proteins ofArabidopsis. The expression level ofMdGSTU1 gene was detected in different tissues and under NaCl, PEG andAlternaria maliRoberts treatments using RT-PCR. Finally, the promoter ofMdGSTU1 gene was cloned and thecis-acting regulatory elements were analyzed through PlantCARE database.[Result]An apple gene encoding a putative glutathione transferase was obtained from a resistance-related EST to apple ring rot. The amplified sequence of this gene contains a 666 bp coding sequence, which encodes a protein of 221 amino acid residues. The calculated molecular mass is 25.41 kDa, with the isoelectric point 5.28. The phylogenetic relationship of this gene is closer with Arabidopsis tau type GST family, so it was namedMdGSTU1. Sequence analysis showed that MdGSTU1 protein contains conserved glutathione S-transferase N- and C-terminal domain. RT-PCR results showed that theMdGSTU1 gene was expressed in all tissues tested. However, its expression level varied with tissue type, and the highest transcriptional level occurred in root, compared with other tissues

  11. Analysis of DNA methylation and virus induced DNA methylation change in MD-resistant and –susceptible chickens

    Directory of Open Access Journals (Sweden)

    Juan eLuo

    2012-02-01

    Full Text Available Marek’s disease (MD is a lymphoproliferative disease induced by Marek’s disease virus (MDV infection. With the less efficacy of vaccine in MD prevention, genetically selected MD-resistant chicken becomes more and more important in MD control. To elucidate the mechanism of MD-resistance, lots of researches were focused on the different genetic differences between the resistant and susceptible chickens. However, less is known about the epigenetic features. By using pyrosequencing, the promoter methylations of 18 candidate genes in MD-resistant (L63 and –susceptible (L72 chicken were examined, we found that most of the genes have higher methylation level in L72. MDV infection changed the expressions of all three methyltransferases (DNMT1, DNMT3a and DNMT3b, while the up-regulation of DNMT1 was only shown in L72 and down-regulation of DNMT3b only in L63 at 21dpi. Interestingly, a dynamic change of promoter methylation was observed in most of the genes in both lines during MDV life cycle. Seven genes, including HDAC9, GH, STAT1, CIITA, FABP3, LATS2 and H2Ac, showed different methylation behavior between L63 and L72. In summary, the findings from this study suggested that DNA methylation heterogeneity exists in MD-resistance and –susceptibility chicken, and MDV infection also induces differential methylation alterations, both indicating epigenetic factor may involve in MD.

  12. Comparative MD Simulations Indicate a Dual Role for Arg1323.50 in Dopamine-Dependent D2R Activation.

    Directory of Open Access Journals (Sweden)

    Ralf C Kling

    Full Text Available Residue Arg3.50 belongs to the highly conserved DRY-motif of class A GPCRs, which is located at the bottom of TM3. On the one hand, Arg3.50 has been reported to help stabilize the inactive state of GPCRs, but on the other hand has also been shown to be crucial for stabilizing active receptor conformations and mediating receptor-G protein coupling. The combined results of these studies suggest that the exact function of Arg3.50 is likely to be receptor-dependent and must be characterized independently for every GPCR. Consequently, we now present comparative molecular-dynamics simulations that use our recently described inactive-state and Gα-bound active-state homology models of the dopamine D2 receptor (D2R, which are either bound to dopamine or ligand-free, performed to identify the function of Arg1323.50 in D2R. Our results are consistent with a dynamic model of D2R activation in which Arg1323.50 adopts a dual role, both by stabilizing the inactive-state receptor conformation and enhancing dopamine-dependent D2R-G protein coupling.

  13. Cryptanalysis of MD2

    DEFF Research Database (Denmark)

    Knudsen, Lars Ramkilde; Mathiassen, John Erik; Muller, Frédéric

    2010-01-01

    This paper considers the hash function MD2 which was developed by Ron Rivest in 1989. Despite its age, MD2 has withstood cryptanalytic attacks until recently. This paper contains the state-of-the-art cryptanalytic results on MD2, in particular collision and preimage attacks on the full hash...

  14. Result Analysis and Benefits of Detecting Replicate Documents Using MD5 Hash Function

    Directory of Open Access Journals (Sweden)

    Pushpendra Singh Tomar

    2011-12-01

    Full Text Available The definition of what constitutes a replicate has somewhat different interpretations. For instance, some define a replicate as having the exact syntactic terms and sequence, whether having formatting differences or not. In effect, there are either no difference or only formatting differences and the contents of the data are exactly the same. In any case, data replication happens all the time. In large data warehouses, data replication is an inevitable phenomenon as millions of data are gathered at very short intervals. In this paper we provide a detail result analysis on the basis of our approach and the previous one.

  15. Result Analysis and Benefits of Detecting Replicate Documents Using MD5 Hash Function

    Directory of Open Access Journals (Sweden)

    Mr. Pushpendra Singh Tomar

    2011-09-01

    Full Text Available The definition of what constitutes a replicate has somewhat different interpretations. For instance, some define a replicate as having the exact syntactic terms and sequence, whether having formatting differences or not. In effect, there are either no difference or only formatting differences and the contents of the data are exactly the same. In any case, data replication happens all the time. In large data warehouses, data replication is an inevitable phenomenon as millions of data are gathered at very short intervals. In this paper we provide a detail result analysis on the basis of our approach and the previous one.

  16. Steric effects on intramolecular reactivity in cyclic dipeptides: Conformational analysis validated by a combined MD/DFT approach

    Science.gov (United States)

    Lewandowska, A.; Carmichael, I.; Hörner, G.; Hug, G. L.; Marciniak, B.

    2011-08-01

    The present Molecular Dynamics (MD) simulation study addresses the geometric requirements of close-contact formation in short peptides. This process, that is probed herein by intramolecular H-atom transfer, initiated by triplet-excited ketones, demands close contact between the H-donating and H-accepting moieties. Thus, any deduction about the compound's reactivity based just on MD simulations, requires independent verification of the computed conformational preferences. In this study, a procedure was developed using diketopiperazine-linked benzophenone/tyrosine dyads. Specifically, it involves a comparison of the dyads' experimental 3J(H α-H β(a/b)) spin-spin coupling constants with the theoretical values obtained by weighting DFT-computed spin-spin coupling constants with the MD-computed probability distributions for the dyads' configurations.

  17. Multidimensional Recurrence Quantification Analysis (MdRQA) for the Analysis of Multidimensional Time-Series: A Software Implementation in MATLAB and Its Application to Group-Level Data in Joint Action.

    Science.gov (United States)

    Wallot, Sebastian; Roepstorff, Andreas; Mønster, Dan

    2016-01-01

    We introduce Multidimensional Recurrence Quantification Analysis (MdRQA) as a tool to analyze multidimensional time-series data. We show how MdRQA can be used to capture the dynamics of high-dimensional signals, and how MdRQA can be used to assess coupling between two or more variables. In particular, we describe applications of the method in research on joint and collective action, as it provides a coherent analysis framework to systematically investigate dynamics at different group levels-from individual dynamics, to dyadic dynamics, up to global group-level of arbitrary size. The Appendix in Supplementary Material contains a software implementation in MATLAB to calculate MdRQA measures.

  18. MD SIMULATION FOR NANOCRYSTALS

    Institute of Scientific and Technical Information of China (English)

    马新玲; 杨卫

    2003-01-01

    Molecular dynamic (MD) provided an ab initio simulation for nano-scale mechanical behavior of materials, provided that the inter-atomic potential is accurately prescribed. MD is particularly suitable in simulating the formation, the deformation, and the evolution of nanocrystals under a fast strain rate. To tackle large scale system and nano-seconds time duration, parallel algorithm is desired. The present paper reviews the recent advances in MD simulation for nanocrystals with attention focused on the applications toward nanomechanics. The examined issues are: formation of nanocrystalline metals, nanoindentation on nanocrystals, fast deformation of nanocrystals, orderdisorder transition, and nano-particle impact.

  19. Conformational analysis of the Sda determinant-containing tetrasaccharide and two mimics in aqueous solution by using 1H NMR ROESY spectroscopy in combination with MD simulations

    Energy Technology Data Exchange (ETDEWEB)

    Blanco, Jose L. Jimenez; Rooijen, Johannes J.M. van; Erbel, Paul J.A.; Leeflang, Bas R.; Kamerling, Johannis P.; Vliegenthart, Johannes F.G. [Utrecht University, Department of Bio-Organic Chemistry, Bijvoet Center (Netherlands)

    2000-01-15

    The conformational behaviour of the spacer-linked synthetic Sd{sup a} tetrasaccharide {beta}-d-GalpNAc-(1{sup {yields}}4)-[{alpha}-Neu5Ac-(2{sup {yields}}3)]-{beta}-d-Galp-(1{sup {yields}}4)-{beta}-d-GlcpNAc-(1{sup {yields}}O) (CH{sub 2}){sub 5}NH{sub 2} (1) and the two mimics {beta}-d-Galp-(1{sup {yields}}4)-[{alpha}-Neu5Ac-(2{sup {yields}}3)]-{beta}-d-Galp-(1{sup {yields}}4)-{beta}-d-GlcpNAc-(1{sup {yields}}O)(CH{sub 2}){sub 5}NH{sub 2} (2) and {beta}-d-GlcpNAc-(1{sup {yields}}4)-[{alpha}-Neu5Ac-(2{sup {yields}}3)]-{beta}-d-Galp-(1{sup {yields}}4)-{beta}-d-GlcpNAc-(1{sup {yields}}O) (CH{sub 2}){sub 5}NH{sub 2} (3) were investigated by {sup 1}H NMR spectroscopy in combination with molecular dynamics (MD) simulations in water. Experimental 2D {sup 1}H ROESY cross-peak intensities (ROEs) of the tetrasaccharides were compared with calculated ROEs derived from MD trajectories using the CROSREL program. Analysis of these data indicated that the oligosaccharidic skeletons of the compounds 1-3 are rather rigid, especially the {beta}-d-Hex(NAc)-(1{sup {yields}}4)-[{alpha}-Neu5Ac-(2{sup {yields}}3)]-{beta}-d-Galp fragments. The {alpha}- Neu5-Ac-(2{sup {yields}}3)-{beta}-d-Galp linkage occurred in two different energy minima in the three-dimensional structure of the compounds 1-3 in aqueous solution. Experimental data and dynamics simulations supported the finding that the higher energy rotamer (CHEAT forcefield) was abundant in compounds 1 and 3 due to the existence of a hydrogen bond between the carboxyl group of the sialic acid and the acetamido group of the terminal monosaccharide (GalNAc or GlcNAc) unit. The conformational similarity between 1 and 3 leads to the suggestion that also their activities will be alike.

  20. In silico thermodynamics stability change analysis involved in BH4 responsive mutations in phenylalanine hydroxylase: QM/MM and MD simulations analysis.

    Science.gov (United States)

    Chadha, Nidhi; Tiwari, Anjani K; Kumar, Vikas; Milton, Marilyn D; Mishra, Anil K

    2015-01-01

    The mammalian tetrahydrobiopterin (BH4)-dependent phenylalanine hydroxylases (PAH), involved in important metabolic pathways of phenylalanine, belong to non-heme iron-containing aromatic acid hydroxylases' enzyme (AAH) family. AAHs utilize BH4 as protein co-factor and thus promote hydroxylation reactions of their substrates. Any alterations in BH4 -mediated AAH's pathway or mutations in these enzymes are responsible for various disorders, and thus highlights the importance of mutational analysis to assess the effect on their biosynthetic pathways. Our present studies are aimed at single-site mutations in PAH that lead to thermodynamic stability change upon folding and further validation of designed non-reduced BH2 designed co-factors. We have presented single-site mutational analysis of PAH where single-site mutations have been identified from known literature. Further, in silico studies with the PAH, in silico mutant PAH, and crystallized known mutant A313T forms, involved QM/MM and Molecular Dynamics (MD) simulations analysis. The modified co-factor A showed high affinity with PAH and all mutant PAH with high G-score of -14.851. The best pose high affinity co-factor A subjected to QM/MM optimization which leads to square-pyramidal coordination of non-heme active site. The structural and energetic information obtained from the production phase of 20 ns MD simulation of co-factor-metalloprotein complex results helped to understand the binding mode and involvement of three molecules throughout the reaction pathways' catalysis of PAH. The free energies of binding (dG) of A were found to be -68.181 kcal/mol and -72.249 for 1DMW and 1TDW for A313T mutant. Binding of Co-factor A do not perturb the coordination environment of iron at the active site which resides in 2-Histdine and 1-Glutamate triad, and may enhance the percentage response towards co-factor-mediated therapy.

  1. Muscular Dystrophy (MD)

    Science.gov (United States)

    ... fight respiratory infections. Some individuals may benefit from occupational therapy and assistive technology. Some ... (MD) are a group of more than 30 genetic diseases characterized by progressive weakness and degeneration of the ...

  2. Exploring intentions of physician-scientist trainees: factors influencing MD and MD/PhD interest in research careers.

    Science.gov (United States)

    Kwan, Jennifer M; Daye, Dania; Schmidt, Mary Lou; Conlon, Claudia Morrissey; Kim, Hajwa; Gaonkar, Bilwaj; Payne, Aimee S; Riddle, Megan; Madera, Sharline; Adami, Alexander J; Winter, Kate Quinn

    2017-07-11

    Prior studies have described the career paths of physician-scientist candidates after graduation, but the factors that influence career choices at the candidate stage remain unclear. Additionally, previous work has focused on MD/PhDs, despite many physician-scientists being MDs. This study sought to identify career sector intentions, important factors in career selection, and experienced and predicted obstacles to career success that influence the career choices of MD candidates, MD candidates with research-intense career intentions (MD-RI), and MD/PhD candidates. A 70-question survey was administered to students at 5 academic medical centers with Medical Scientist Training Programs (MSTPs) and Clinical and Translational Science Awards (CTSA) from the NIH. Data were analyzed using bivariate or multivariate analyses. More MD/PhD and MD-RI candidates anticipated or had experienced obstacles related to balancing academic and family responsibilities and to balancing clinical, research, and education responsibilities, whereas more MD candidates indicated experienced and predicted obstacles related to loan repayment. MD/PhD candidates expressed higher interest in basic and translational research compared to MD-RI candidates, who indicated more interest in clinical research. Overall, MD-RI candidates displayed a profile distinct from both MD/PhD and MD candidates. MD/PhD and MD-RI candidates experience obstacles that influence their intentions to pursue academic medical careers from the earliest training stage, obstacles which differ from those of their MD peers. The differences between the aspirations of and challenges facing MD, MD-RI and MD/PhD candidates present opportunities for training programs to target curricula and support services to ensure the career development of successful physician-scientists.

  3. Airline Safety: A Comparative Analysis.

    Science.gov (United States)

    1987-01-01

    Argentinas Olympic AUA (Austria) PIA (Pakistan) Avianca (Colombia) Pan American British Airways PAL (Philippines) East African Qantas Egyptair Sabena El...S.TP OFR O T PEIDCV E Airline Safety: A Comparative Analysis TRlES IS1j0’~fJ 6. PERFORMING 01G. REPORT NUMBER AU TNOR( ) Sign . CONTRACT OR GRANT NUMBER...OF I NOVa IS 1 OBSOLETE SECURITY CLASSIFICATION OF THIS PAGE j",.n Des. Enterod) 87 jO 1 4 Xb AIRLINE SAFETY: A COMPARATIVE ANALYSIS by Mary Katherine

  4. MD-2 binds cholesterol.

    Science.gov (United States)

    Choi, Soo-Ho; Kim, Jungsu; Gonen, Ayelet; Viriyakosol, Suganya; Miller, Yury I

    2016-02-19

    Cholesterol is a structural component of cellular membranes, which is transported from liver to peripheral cells in the form of cholesterol esters (CE), residing in the hydrophobic core of low-density lipoprotein. Oxidized CE (OxCE) is often found in plasma and in atherosclerotic lesions of subjects with cardiovascular disease. Our earlier studies have demonstrated that OxCE activates inflammatory responses in macrophages via toll-like receptor-4 (TLR4). Here we demonstrate that cholesterol binds to myeloid differentiation-2 (MD-2), a TLR4 ancillary molecule, which is a binding receptor for bacterial lipopolysaccharide (LPS) and is indispensable for LPS-induced TLR4 dimerization and signaling. Cholesterol binding to MD-2 was competed by LPS and by OxCE-modified BSA. Furthermore, soluble MD-2 in human plasma and MD-2 in mouse atherosclerotic lesions carried cholesterol, the finding supporting the biological significance of MD-2 cholesterol binding. These results help understand the molecular basis of TLR4 activation by OxCE and mechanisms of chronic inflammation in atherosclerosis.

  5. BANK RATING. A COMPARATIVE ANALYSIS

    Directory of Open Access Journals (Sweden)

    Batrancea Ioan

    2015-07-01

    Full Text Available Banks in Romania offers its customers a wide range of products but which involves both risk taking. Therefore researchers seek to build rating models to help managers of banks to risk of non-recovery of loans and interest. In the following we highlight rating Raiffeisen Bank, BCR-ERSTE Bank and Transilvania Bank, based on the models CAAMPL and Stickney making a comparative analysis of the two rating models.

  6. Cloning and Expression Analysis of GlutathioneS-Transferase GeneMdGSTF3 from Apple (Malus domestica)%苹果谷胱甘肽S-转移酶基因MdGSTF3的克隆及其表达分析

    Institute of Scientific and Technical Information of China (English)

    樊连梅; 刘更森; 李思琪; 原永兵

    2015-01-01

    A full-length glutathioneS-transferase gene namedMdGSTF3 was cloned with RT-PCR and RACE-PCR fromMalus domestica cv. ‘Fuji’ peel. The GenBank accession number was KP234026.MdGSTF3was 868 bp in length including 49 bp of 5' untranslated region, 151 bp of 3' untranslated region and 26 bp polyA. It had a coding sequence (CDS) of 642 bp, encoding 213 amino acid residues. This predicted polypeptide includ-ed 19 kinds of amino acids except for cysteine, with the molecular mass of 23.993 kDa, isoelectric point of 6.17. Real-time lfuorescent quantitative PCR analysis showed that the expression level ofMdGSTF3 in stems, leaves, lfowers of striped-red ‘Fuji’ was higher than that of the mutant blushed-red ‘Fuji’, but the expression level of MdGSTF3 in peel and pulp of blushed-red ‘Fuji’ was higher than that of striped-red ‘Fuji’. The most relative expression quantity ofMdGSTF3 from peel and pulp of blushed-red ‘Fuji’ were 46.6% and 22.1% higher than that of striped-red ‘Fuji’ respectively. The results indicated that the expression level ofMdGSTF3was closely related with anthocyanin accumulation and distribution of apple peel.%以‘富士’苹果果皮为试材,利用RT-PCR和RACE-PCR克隆得到1个全长为868 bp的苹果谷胱甘肽S-转移酶基因MdGSTF3全长cDNA序列, GenBank的登录号为KP234026,该基因5'非翻译区49 bp,3'非翻译区151 bp,含有26 bp的PolyA尾,编码区为642 bp,编码213个氨基酸,编码的蛋白质含有19种氨基酸,不含有半胱氨酸Cys,相对分子质量为23.993 kDa,等电点为6.17。氨基酸多重序列比对分析结果表明MdGST与梅的PmGST蛋白(XP_008235026)遗传相似性为83%。实时荧光定量PCR结果表明, MdGSTF3在条红‘富士’的茎、叶和花中表达量高于其突变体片红‘富士’;而在果皮和果肉中,片红‘富士’该基因的表达量高于条红‘富士’;在表达量达到最大值时,片红‘富士’比条红‘富士’分别高出46.6%和22

  7. Arnold Aberman, MD.

    Science.gov (United States)

    Aberman, A

    1995-10-01

    When the United States embarked on its effort to provide universal health insurance, the Canadian Medicare System was cited as a possible model for American health care. Often touted as an example of low-cost, high quality medicine, the Canadian system has mirrored the problems of health care across its southern border. With rocketing health care expenditures and financing having largely been decentralized to the individual provinces, local officials have struggled to cut costs and services. A central focus of these efforts has been a move to decrease the numbers of physicians, most notably a 10% decrease in medical school class size in 1993. While some Western provinces have experimented with the privatization of health care, the Canadian system still remains the epitome of government operated fee-for-service medicine. Given the likelihood of dramatic change in the American Medicare system, Canadian academic centers offer a unique perspective on the impact of capitation, evolving relationships with government payors, and the flip side of market oriented reforms. At the helm of one of Canada's largest schools is Arnold Aberman, MD, dean of the University of Toronto Faculty of Medicine. Born in Montreal, Quebec, Aberman received his MD from McGill University, but then did his residency both in Canada and the US, followed by a pulmonary fellowship at Albert Einstein College of Medicine and the Cardiovascular Research Institute of the University of California, San Francisco. Interviewed at his office in Toronto, Aberman reflected on the trials and tribulations confronting medicine on both sides of the 48th parallel.

  8. Sociological analysis and comparative education

    Science.gov (United States)

    Woock, Roger R.

    1981-12-01

    It is argued that comparative education is essentially a derivative field of study, in that it borrows theories and methods from academic disciplines. After a brief humanistic phase, in which history and philosophy were central for comparative education, sociology became an important source. In the mid-50's and 60's, sociology in the United States was characterised by Structural Functionalism as a theory, and Social Survey as a dominant methodology. Both were incorporated into the development of comparative education. Increasingly in the 70's, and certainly today, the new developments in sociology are characterised by an attack on Positivism, which is seen as the philosophical position underlying both functionalism and survey methods. New or re-discovered theories with their attendant methodologies included Marxism, Phenomenological Sociology, Critical Theory, and Historical Social Science. The current relationship between comparative education and social science is one of uncertainty, but since social science is seen to be returning to its European roots, the hope is held out for the development of an integrated social theory and method which will provide a much stronger basis for developments in comparative education.

  9. ADT fast losses MD

    CERN Document Server

    Priebe, A; Dehning, B; Redaelli, S; Salvachua Ferrando, BM; Sapinski, M; Solfaroli Camillocci, M; Valuch, D

    2013-01-01

    The fast beam losses in the order of 1 ms are expected to be a potential major luminosity limitation for higher beam energies after the LHC long shutdown (LS1). Therefore a Quench Test is planned in the winter 2013 to estimate the quench limit in this timescale and revise the current models. This experiment was devoted to determination the LHC Transverse Damper (ADT) as a system for fast losses induction. A non-standard operation of the ADT was used to develop the beam oscillation instead of suppressing them. The sign flip method had allowed us to create the fast losses within several LHC turns at 450 GeV during the previous test (26th March 2012). Thus, the ADT could be potentially used for the studies of the UFO ("Unidentied Falling Object") impact on the cold magnets. Verification of the system capability and investigations of the disturbed beam properties were the main objectives of this MD. During the experiment, the pilot bunches of proton beam were excited independently in the horizontal and vertical ...

  10. Reorientational eigenmode dynamics: a combined MD/NMR relaxation analysis method for flexible parts in globular proteins.

    Science.gov (United States)

    Prompers, J J; Brüschweiler, R

    2001-08-01

    An approach is presented for the interpretation of heteronuclear NMR spin relaxation data in mobile protein parts in terms of reorientational eigenmode dynamics. The method is based on the covariance matrix of the spatial functions of the nuclear spin interactions that cause relaxation expressed as spherical harmonics of rank 2. The approach was applied to characterize the dynamics of a loop region of ubiquitin. The covariance matrix was determined from a conformational ensemble generated by a 5 ns molecular dynamics simulation. It was found that the time correlation functions of the dominant eigenmodes decay in good approximation with a single correlation time. From the reorientational eigenmodes, their eigenvalues, and correlation times, NMR relaxation data were calculated in accordance with Bloch-Wangsness-Redfield relaxation theory and directly compared with experimental (15)N relaxation parameters. Using a fitting procedure, agreement between calculated and experimental data was improved significantly by adjusting eigenvalues and correlation times of the dominant modes. The presented procedure provides detailed information on correlated reorientational dynamics of flexible parts in globular proteins. The covariance matrix was linked to the covariance matrix of backbone dihedral angle fluctuations, allowing one to study the motional behavior of these degrees of freedom on nano- and subnanosecond time scales.

  11. Energies and 2'-Hydroxyl Group Orientations of RNA Backbone Conformations. Benchmark CCSD(T)/CBS Database, Electronic Analysis, and Assessment of DFT Methods and MD Simulations.

    Science.gov (United States)

    Mládek, Arnošt; Banáš, Pavel; Jurečka, Petr; Otyepka, Michal; Zgarbová, Marie; Šponer, Jiří

    2014-01-14

    Sugar-phosphate backbone is an electronically complex molecular segment imparting RNA molecules high flexibility and architectonic heterogeneity necessary for their biological functions. The structural variability of RNA molecules is amplified by the presence of the 2'-hydroxyl group, capable of forming multitude of intra- and intermolecular interactions. Bioinformatics studies based on X-ray structure database revealed that RNA backbone samples at least 46 substates known as rotameric families. The present study provides a comprehensive analysis of RNA backbone conformational preferences and 2'-hydroxyl group orientations. First, we create a benchmark database of estimated CCSD(T)/CBS relative energies of all rotameric families and test performance of dispersion-corrected DFT-D3 methods and molecular mechanics in vacuum and in continuum solvent. The performance of the DFT-D3 methods is in general quite satisfactory. The B-LYP-D3 method provides the best trade-off between accuracy and computational demands. B3-LYP-D3 slightly outperforms the new PW6B95-D3 and MPW1B95-D3 and is the second most accurate density functional of the study. The best agreement with CCSD(T)/CBS is provided by DSD-B-LYP-D3 double-hybrid functional, although its large-scale applications may be limited by high computational costs. Molecular mechanics does not reproduce the fine energy differences between the RNA backbone substates. We also demonstrate that the differences in the magnitude of the hyperconjugation effect do not correlate with the energy ranking of the backbone conformations. Further, we investigated the 2'-hydroxyl group orientation preferences. For all families, we conducted a QM and MM hydroxyl group rigid scan in gas phase and solvent. We then carried out set of explicit solvent MD simulations of folded RNAs and analyze 2'-hydroxyl group orientations of different backbone families in MD. The solvent energy profiles determined primarily by the sugar pucker match well with the

  12. A Hamiltonian replica exchange molecular dynamics (MD) method for the study of folding, based on the analysis of the stabilization determinants of proteins.

    Science.gov (United States)

    Meli, Massimiliano; Colombo, Giorgio

    2013-06-06

    Herein, we present a novel Hamiltonian replica exchange protocol for classical molecular dynamics simulations of protein folding/unfolding. The scheme starts from the analysis of the energy-networks responsible for the stabilization of the folded conformation, by means of the energy-decomposition approach. In this framework, the compact energetic map of the native state is generated by a preliminary short molecular dynamics (MD) simulation of the protein in explicit solvent. This map is simplified by means of an eigenvalue decomposition. The highest components of the eigenvector associated with the lowest eigenvalue indicate which sites, named "hot spots", are likely to be responsible for the stability and correct folding of the protein. In the Hamiltonian replica exchange protocol, we use modified force-field parameters to treat the interparticle non-bonded potentials of the hot spots within the protein and between protein and solvent atoms, leaving unperturbed those relative to all other residues, as well as solvent-solvent interactions. We show that it is possible to reversibly simulate the folding/unfolding behavior of two test proteins, namely Villin HeadPiece HP35 (35 residues) and Protein A (62 residues), using a limited number of replicas. We next discuss possible implications for the study of folding mechanisms via all atom simulations.

  13. A Hamiltonian Replica Exchange Molecular Dynamics (MD Method for the Study of Folding, Based on the Analysis of the Stabilization Determinants of Proteins

    Directory of Open Access Journals (Sweden)

    Massimiliano Meli

    2013-06-01

    Full Text Available Herein, we present a novel Hamiltonian replica exchange protocol for classical molecular dynamics simulations of protein folding/unfolding. The scheme starts from the analysis of the energy-networks responsible for the stabilization of the folded conformation, by means of the energy-decomposition approach. In this framework, the compact energetic map of the native state is generated by a preliminary short molecular dynamics (MD simulation of the protein in explicit solvent. This map is simplified by means of an eigenvalue decomposition. The highest components of the eigenvector associated with the lowest eigenvalue indicate which sites, named “hot spots”, are likely to be responsible for the stability and correct folding of the protein. In the Hamiltonian replica exchange protocol, we use modified force-field parameters to treat the interparticle non-bonded potentials of the hot spots within the protein and between protein and solvent atoms, leaving unperturbed those relative to all other residues, as well as solvent-solvent interactions. We show that it is possible to reversibly simulate the folding/unfolding behavior of two test proteins, namely Villin HeadPiece HP35 (35 residues and Protein A (62 residues, using a limited number of replicas. We next discuss possible implications for the study of folding mechanisms via all atom simulations.

  14. Comparative effectiveness of biomarkers and clinical indicators for predicting outcomes of SSRI treatment in Major Depressive Disorder: results of the BRITE-MD study.

    Science.gov (United States)

    Leuchter, Andrew F; Cook, Ian A; Marangell, Lauren B; Gilmer, William S; Burgoyne, Karl S; Howland, Robert H; Trivedi, Madhukar H; Zisook, Sidney; Jain, Rakesh; McCracken, James T; Fava, Maurizio; Iosifescu, Dan; Greenwald, Scott

    2009-09-30

    Patients with Major Depressive Disorder (MDD) may not respond to antidepressants for 8 weeks or longer. A biomarker that predicted treatment effectiveness after only 1 week could be clinically useful. We examined a frontal quantitative electroencephalographic (QEEG) biomarker, the Antidepressant Treatment Response (ATR) index, as a predictor of response to escitalopram, and compared ATR with other putative predictors. Three hundred seventy-five subjects meeting DSM-IV criteria for MDD had a baseline QEEG study. After 1 week of treatment with escitalopram, 10 mg, a second QEEG was performed, and the ATR was calculated. Subjects then were randomly assigned to continue with escitalopram, 10 mg, or change to alternative treatments. Seventy-three evaluable subjects received escitalopram for a total of 49days. Response and remission rates were 52.1% and 38.4%, respectively. The ATR predicted both response and remission with 74% accuracy. Neither serum drug levels nor 5HTTLPR and 5HT2a genetic polymorphisms were significant predictors. Responders had larger decreases in Hamilton Depression Rating Scale (Ham-D(17)) scores at day 7 (P=0.005), but remitters did not. Clinician prediction based upon global impression of improvement at day 7 did not predict outcome. Logistic regression showed that the ATR and early Ham-D(17) changes were additive predictors of response, but the ATR was the only significant predictor of remission. Future studies should replicate these results prior to clinical use.

  15. MD5算法研究%MD5 Algorithm

    Institute of Scientific and Technical Information of China (English)

    张裔智; 赵毅; 汤小斌

    2008-01-01

    随着网络技术的迅速发展,信息加密技术已成为保障网络安全的一种重要手段,加密算法已经成为人们的一个研究热点.本文对MD5算法进行了深入研究,介绍MD5算法的产生背景、应用及其算法流程,并提出了MD5算法的一个改进方案.

  16. MD290: Q4 IP6 Quench Level

    CERN Document Server

    Bednarek, Mateusz Jakub; Lechner, Anton; CERN. Geneva. ATS Department

    2016-01-01

    The detailed program proposed for the LHC Machine Development concerning a quench induced by fast losses on the MQY.4L6 quadrupole is presented. The merit of the MD, the necessary modifications of the machine protection systems are presented together with a preliminary analysis of the MD results.

  17. Coastal Analysis, Charles County, MD

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — Coastal study as defined in FEMA Guides and Specifications, Appendix D: Guidance for coastal Flooding Analyses and Mapping submitted as a result of a coastal study....

  18. Coastal Analysis, Dorchester County, MD

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — Coastal study as defined in FEMA Guides and Specifications, Appendix D: Guidance for coastal Flooding Analyses and Mapping submitted as a result of a coastal study....

  19. Understanding the role of base stacking in nucleic acids. MD and QM analysis of tandem GA base pairs in RNA duplexes.

    Science.gov (United States)

    Morgado, Claudio A; Svozil, Daniel; Turner, Douglas H; Šponer, Jiří

    2012-09-28

    Preceding NMR experiments show that the conformation of tandem GA base pairs, an important recurrent non-canonical building block in RNA duplexes, is context dependent. The GA base pairs adopt "sheared" N3(G)-N6(A), N2(G)-N7(A) geometry in the r(CGAG)(2) and r(iGGAiC)(2) contexts while switching to "imino" N1(G)-N1(A), O6(G)-N6(A) geometry in the r(GGAC)(2) and r(iCGAiG)(2) contexts (iC and iG stand for isocytosine and isoguanine, respectively). As base stacking is likely to be one of the key sources of the context dependence of the conformation of GA base pairs, we calculated base stacking energies in duplexes containing such base pairs, to see if this dependence can be predicted by stacking energy calculations. When investigating the context dependence of the GA geometry two different conformations of the same duplex were compared (imino vs. sheared). The geometries were generated via explicit solvent MD simulations of the respective RNA duplexes, while the subsequent QM energy calculations focused on base stacking interactions of the four internal base pairs. Geometrical relaxation of nucleobase atoms prior to the stacking energy computations has a non-negligible effect on the results. The stacking energies were derived at the DFT-D/6-311++G(3df,3pd) level. We show a rather good correspondence between the intrinsic gas-phase stacking energies and the NMR-determined GA geometries. The conformation with more favorable gas-phase stacking is in most cases the one observed in experiments. This correlation is not improved when including solvent effects via the COSMO method. On the other side, the stacking calculations do not predict the relative thermodynamic stability of duplex formation for different sequences.

  20. 基于C#的MD5加密算法的应用%Application of the MD5 algorithm based on C#

    Institute of Scientific and Technical Information of China (English)

    林宗朝

    2011-01-01

    介绍了WEB SYSTEM中的密钥安全性能。主要讨论了WEB SYSTEM中MD5加密算法,包含客户password安全性分析、MD5加密算法概述、基于C#的MD5加密应用介绍,以及IT SYSTEM中MD5算法的应用与IMPROVEMENT等问题。%The key safety properties of the WEB system is described,and the.MD5 encryption algorithm is discussed mainly including the user password security analysis,MD5 encryption algorithm summary,MD5 encryption applications based on the C# and the improvement of MD5 algorithm.

  1. Comparing Techniques for Certified Static Analysis

    Science.gov (United States)

    Cachera, David; Pichardie, David

    2009-01-01

    A certified static analysis is an analysis whose semantic validity has been formally proved correct with a proof assistant. The recent increasing interest in using proof assistants for mechanizing programming language metatheory has given rise to several approaches for certification of static analysis. We propose a panorama of these techniques and compare their respective strengths and weaknesses.

  2. A Comparative Study on Error Analysis

    DEFF Research Database (Denmark)

    Wu, Xiaoli; Zhang, Chun

    2015-01-01

    Title: A Comparative Study on Error Analysis Subtitle: - Belgian (L1) and Danish (L1) learners’ use of Chinese (L2) comparative sentences in written production Xiaoli Wu, Chun Zhang Abstract: Making errors is an inevitable and necessary part of learning. The collection, classification and analysis...... the occurrence of errors either in linguistic or pedagogical terms. The purpose of the current study is to demonstrate the theoretical and practical relevance of error analysis approach in CFL by investigating two cases - (1) Belgian (L1) learners’ use of Chinese (L2) comparative sentences in written production....... Finally, pedagogical implication of CFL is discussed and future research is suggested. Keywords: error analysis, comparative sentences, comparative structure ‘‘bǐ - 比’, Chinese as a foreign language (CFL), written production...

  3. Classical MD calculations with parallel computers

    Energy Technology Data Exchange (ETDEWEB)

    Matsumoto, Mitsuhiro [Nagoya Univ. (Japan)

    1998-03-01

    We have developed parallel computation codes for a classical molecular dynamics (MD) method. In order to use them on work station clusters as well as parallel super computers, we use MPI (message passing interface) library for distributed-memory type computers. Two algorithms are compared: (1) particle parallelism technique: easy to install, effective for rather small number of processors. (2) region parallelism technique: take some time to install, effective even for many nodes. (J.P.N.)

  4. Cloning and Location of MdCPS and Analysis Its Expression Difference Between Columnar and Standard Tree Architecture in Apple%苹果MdCPS基因的克隆、定位及其在柱型/普通型间的表达差异分析

    Institute of Scientific and Technical Information of China (English)

    田义轲; 白牡丹; 王彩虹; 刘云龙; 陈宝印

    2014-01-01

    为研究赤霉素合成途径关键酶基因,了解果树的矮化机理。以苹果品种富士当年生新梢的茎尖为试材,以苹果基因组数据库为依据,克隆了编码苹果CPS的基因MdCPS(GenBanK登录号:KC433942.1)。该基因gDNA序列含有15个外显子和14个内含子,其编码序列( Coding sequence,CDS)长度为2400 bp,共编码799个氨基酸。在已发表的金冠苹果基因组中,与该基因相对应的转录本是MDP0000147908,它的定位区间为chr11:32433834~32439214。同源性分析表明,MdCPS与其他植物的CPS间有较高的相似性(49%~67%)。以杂交组合富士(普通型)×舞姿(柱型)的亲本品种及F1后代当年生新梢的茎尖组织为试材,实时荧光定量PCR( qRT-PCR)分析表明,尽管该基因在柱型亲本中的表达水平显著低于普通型亲本,但在其后代的柱型与普通型群体间差异并不明显。同时,在柱型杂种及其普通型突变体间的分析结果也表明,MdCPS的表达水平与柱型性状没有明显的相关性。可见,柱型苹果茎尖组织中活性赤霉素含量偏低受其合成早期步骤关键酶基因MdCPS的影响不大。%Gibberellines are the most important phtyohormones influencing the plant height of fruit trees. Re-searches of the genes encoding the critical enzymes in gibberellin biosynthesis are significant to understanding the mechanism of dwarf tree architectures. This study reported the isolation of the MdCPS ( GenBank accession number:KC433942. 1),encoding CPS in apple, from primary apical shoots of the variety Fuji based on the apple genome database. The gDNA sequence of MdCPS contained 15 exons and 14 introns,and the coding sequence( CDS) of it was 2 400 bp,which encoded a polypeptide of 799 amino acids. The transcript MDP0000147908 that spanned chro-mosome 11 from location 32433834 to 32439214 in the published Golden delicious apple genome corresponds to this gene. Homology analysis indicated that the deduced MdCPS shared a higher

  5. Comparative analysis of nutritional composition of Amaranthus ...

    African Journals Online (AJOL)

    Comparative analysis of nutritional composition of Amaranthus caudatus ... and Hibiscus sabdariffa (Roselle), using standard analytical methods The result ... content (74.8%) and lipid content (5.5%), while Hibiscus sabdariffa (Roselle) contain ...

  6. Implementation of an original approach on the Mines-Douai Comparative Reactivity Method (MD-CRM) instrument to identify part of the missing OH reactivity at an urban site

    Science.gov (United States)

    Dusanter, S.; Michoud, V.; Leonardis, T.; Riffault, V.; Zhang, S.; Locoge, N.

    2015-12-01

    Due to the large number of Volatile Organic Compounds (VOCs) expected in the atmosphere (104-105) (Goldstein and Galbally, ES&T, 2007), exhaustive measurements of VOCs appear to be currently unfeasible using common analytical techniques. In this context, measurements of the total sink of OH, referred as total OH reactivity, can provide a critical test to assess the completeness of trace gas measurements during field campaigns. This can be done by comparing the measured total OH reactivity to values calculated from trace gas measurements. Indeed, large discrepancies are usually found between measured and calculated OH reactivity values revealing the presence of important unmeasured reactive species, which have yet to be identified. A Comparative Reactivity Method (CRM) instrument has been setup at Mines Douai to allow sequential measurements of VOCs and OH reactivity using the same Proton Transfer Reaction-Time of Flight Mass Spectrometer. This approach aims at identifying unmeasured reactive VOCs based on a method proposed by Kato et al. (Atmos. Environ., 2011), taking advantage of VOC oxidations occurring in the CRM sampling reactor. MD-CRM has been deployed at an urban site in Dunkirk (France) during July 2014 to test this new approach. During this campaign, a large fraction of the OH reactivity was not explained by collocated measurements of trace gases (67% on average). In this presentation, we will first describe the approach that was implemented in the CRM instrument to identify part of the observed missing OH reactivity and we will then discuss the OH reactivity budget regarding the origin of air masses reaching the measurement site.

  7. Direct NOE simulation from long MD trajectories

    Science.gov (United States)

    Chalmers, G.; Glushka, J. N.; Foley, B. L.; Woods, R. J.; Prestegard, J. H.

    2016-04-01

    A software package, MD2NOE, is presented which calculates Nuclear Overhauser Effect (NOE) build-up curves directly from molecular dynamics (MD) trajectories. It differs from traditional approaches in that it calculates correlation functions directly from the trajectory instead of extracting inverse sixth power distance terms as an intermediate step in calculating NOEs. This is particularly important for molecules that sample conformational states on a timescale similar to molecular reorientation. The package is tested on sucrose and results are shown to differ in small but significant ways from those calculated using an inverse sixth power assumption. Results are also compared to experiment and found to be in reasonable agreement despite an expected underestimation of water viscosity by the water model selected.

  8. Expression Analysis of the SUPERMAN Family Genes in Apple (Malus × domestica Borkh.) and Function Analysis of MdSUP3%苹果SUPERMAN家族基因的组织特异表达及MdSUP3的功能分析

    Institute of Scientific and Technical Information of China (English)

    许轲; 刘娜; 谢璇; 朱元娣

    2016-01-01

    通过半定量RT-PCR分析SUPERMAN家族基因在‘富士’苹果(Malus×domestica Borkh.‘Fuji’)叶芽、幼叶、花芽、花蕾、花、皮部组织和幼果中的表达模式,通过MdSUP3自主启动子驱动的GUS基因表达和MdSUP3异位表达分析其功能.结果表明,MdSUP3、MdSUP11和MdSUP9a在所检测的组织器官中均有表达,MdSUP9b主要在营养器官中表达,MdSUP5a、MdSUP1b主要在生殖器官中表达.MdSUP3启动子驱动GUS基因在植株根尖、幼叶、幼茎和花等器官中表达.超表达MdSUP3的转基因烟草植株矮化、节间缩短、叶片卷缩、花器官颜色改变和部分花器官形态异常;与对照相比,转基因烟草中ABA合成酶基因NtNCED3-2,花青素合成途径的NtDFR2和NtANS1基因表达显著上升,细胞分裂素氧化酶基因NtCKX和赤霉素氧化酶基因NtGA2ox4表达显著下降.异位过量表达删除C端DLELRL基序的MdSUP3基因不影响转基因烟草的生长发育,证明DLELRL是基因必不可少的功能域.

  9. Information Quality Evaluation Model of Management's Discussion and Analysis of Listod Companies-Based on the Perspective of Government Supervision%上市公司“MD & A”信息质量评价模型--基于政府监管的视角

    Institute of Scientific and Technical Information of China (English)

    孟志华

    2014-01-01

    Management Discussion and Analysis (MD&A) ,as a useful supplement of financial statements , which will help to enhance the pertinence and effectiveness of information disclosure ,gets more and more attention of information users .This paper aimes at the present situation of the low quality of our country MD&A information and the inperfect situation of the evaluation system , defines MD&A information quality characteristics reasonably based on the summarization of the research achievements early . On considerring MD&A information generating mechanism and external evaluation results , it constructs MD&A information quality evaluation model for China's listed company using Analytic Hierarchy Process (AHP) .%管理层讨论与分析(Management’s Discussion and AnalysisMD&A )作为财务报表的有益补充,因其能够有助于增强信息披露的针对性和有效性而越来越受到信息使用者的关注。针对我国MD&A信息质量不高的现状和评价体系不尽完善的情况,总结和吸收前人的研究成果,合理界定MD&A信息质量特征。在此基础上,充分考虑MD&A信息的生成机制和外部评价结果,采用层次分析法,构建适合我国上市公司MD&A信息质量评价模型。

  10. THE COMPARATIVE ANALYSIS OF ECOLOGICAL INDICATORS

    Directory of Open Access Journals (Sweden)

    Bikova E.V.

    2006-04-01

    Full Text Available The comparative analysis of ecological indicators designed and specified for Moldova and similar indicators of the countries of CIS is made in the work. Some general items of information about power systems of the countries of CIS (the established capacities, manufacture of the electric power are given, the analysis of dynamics of emissions GHG- СО2, NOx, SO2 in Moldova and comparison with the emissions level in other countries of CIS is made.

  11. Comparative genomic analysis of esophageal cancers.

    Science.gov (United States)

    Caygill, Christine P J; Gatenby, Piers A C; Herceg, Zdenko; Lima, Sheila C S; Pinto, Luis F R; Watson, Anthony; Wu, Ming-Shiang

    2014-09-01

    The following, from the 12th OESO World Conference: Cancers of the Esophagus, includes commentaries on comparative genomic analysis of esophageal cancers: genomic polymorphisms, the genetic and epigenetic drivers in esophageal cancers, and the collection of data in the UK Barrett's Oesophagus Registry.

  12. MD 751: Train Instability Threshold

    CERN Document Server

    Carver, Lee Robert; Metral, Elias; Salvant, Benoit; Levens, Tom; Nisbet, David; Zobov, M; CERN. Geneva. ATS Department

    2016-01-01

    The purpose of this MD is to measure the octupole current thresholds for stability for a single bunch, and then make an immediate comparison (with the same operational settings) for a train of 72 bunches separated by 25ns. From theory, the expected thresholds should be similar. Any discrepancy between the two cases will be of great interest as it could indicate the presence of additional mechanisms that contribute to the instability threshold, for example electron cloud.

  13. National Launch System comparative economic analysis

    Science.gov (United States)

    Prince, A.

    1992-01-01

    Results are presented from an analysis of economic benefits (or losses), in the form of the life cycle cost savings, resulting from the development of the National Launch System (NLS) family of launch vehicles. The analysis was carried out by comparing various NLS-based architectures with the current Shuttle/Titan IV fleet. The basic methodology behind this NLS analysis was to develop a set of annual payload requirements for the Space Station Freedom and LEO, to design launch vehicle architectures around these requirements, and to perform life-cycle cost analyses on all of the architectures. A SEI requirement was included. Launch failure costs were estimated and combined with the relative reliability assumptions to measure the effects of losses. Based on the analysis, a Shuttle/NLS architecture evolving into a pressurized-logistics-carrier/NLS architecture appears to offer the best long-term cost benefit.

  14. Crystal structure of soluble MD-1 and its interaction with lipid IVa

    Science.gov (United States)

    Yoon, Sung-il; Hong, Minsun; Han, Gye Won; Wilson, Ian A.

    2010-01-01

    Lipopolysaccharide (LPS) of Gram-negative bacteria is a common pathogen-associated molecular pattern (PAMP) that induces potent innate immune responses. The host immune response against LPS is triggered by myeloid differentiation factor 2 (MD-2) in association with Toll-like receptor 4 (TLR4) on the cell surface. The MD-2/TLR4-mediated LPS response is regulated by the evolutionarily related complex of MD-1 and Toll-like receptor homolog RP105. Here, we report crystallographic and biophysical data that demonstrate a previously unidentified direct interaction of MD-1 with LPS. The crystal structure of chicken MD-1 (cMD-1) at 2.0 Å resolution exhibits a β-cup-like fold, similar to MD-2, that encloses a hydrophobic cavity between the two β-sheets. A lipid-like moiety was observed inside the cavity, suggesting the possibility of a direct MD-1/LPS interaction. LPS was subsequently identified as an MD-1 ligand by native gel electrophoresis and gel filtration analyses. The crystal structure of cMD-1 with lipid IVa, an LPS precursor, at 2.4 Å resolution revealed that the lipid inserts into the deep hydrophobic cavity of the β-cup-like structure, but with some important differences compared with MD-2. These findings suggest that soluble MD-1 alone, in addition to its complex with RP105, can regulate host LPS sensitivity. PMID:20534476

  15. Nano-scratch study of molecular deposition (MD) films on silicon wafer using nanoindentation~1

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Experiment of the molecular deposition (MD) films with and without alkyl terminal de-posited on the silicon wafer were conducted by using nanoindentation. It was found that MD filmsand alkyl terminated MD films exhibit higher critical load (scratch resistance or adhesive strength)and lower coefficient of friction compared with the silicon substrate. Critical load (scratch resis-tance) increases with the number of layers, and coefficients of friction of those MD film with alkylterminal are still best for the same layer of MD film.

  16. Comparative genomic analysis of eutherian kallikrein genes

    Directory of Open Access Journals (Sweden)

    Marko Premzl

    2017-03-01

    Full Text Available The present study made attempts to update and revise eutherian kallikrein genes implicated in major physiological and pathological processes and in medical molecular diagnostics. Using eutherian comparative genomic analysis protocol and free available genomic sequence assemblies, the tests of reliability of eutherian public genomic sequences annotated most comprehensive curated third party data gene data set of eutherian kallikrein genes including 121 complete coding sequences among 335 potential coding sequences. The present analysis first described 13 major gene clusters of eutherian kallikrein genes, and explained their differential gene expansion patterns. One updated classification and nomenclature of eutherian kallikrein genes was proposed, as new framework of future experiments.

  17. Apple fruit copper amine oxidase isoforms: peroxisomal MdAO1 prefers diamines as substrates, whereas extracellular MdAO2 exclusively utilizes monoamines.

    Science.gov (United States)

    Zarei, Adel; Trobacher, Christopher P; Cooke, Alison R; Meyers, Ashley J; Hall, J Christopher; Shelp, Barry J

    2015-01-01

    4-Aminobutyrate (GABA) accumulates in apple fruit during controlled atmosphere storage. A potential source of GABA is the polyamine putrescine, which can be oxidized via copper-containing amine oxidase (CuAO), resulting in the production 4-aminobutanal/Δ(1)-pyrroline, with the consumption of O2 and release of H2O2 and ammonia. Five putative CuAO genes (MdAO genes) were cloned from apple (Malus domestica Borkh. cv. Empire) fruit, and the deduced amino acid sequences found to contain the active sites typically conserved in CuAOs. Genes encoding two of these enzymes, MdAO1 and MdAO2, were highly expressed in apple fruit and selected for further analysis. Amino acid sequence analysis predicted the presence of a C-terminal peroxisomal targeting signal 1 tripeptide in MdAO1 and an N-terminal signal peptide and N-glycosylation site in MdAO2. Transient expression of green fluorescent fusion proteins in Arabidopsis protoplasts or onion epidermal cells revealed a peroxisomal localization for MdAO1 and an extracellular localization for MdAO2. The enzymatic activities of purified recombinant MdAO1 and MdAO2 were measured continuously as H2O2 production using a coupled reaction. MdAO1 did not use monoamines or polyamines and displayed high catalytic efficiency for 1,3-diaminopropane, putrescine and cadaverine, whereas MdAO2 exclusively utilized aliphatic and aromatic monoamines, including 2-phenylethylamine and tyramine. Together, these results indicate that MdAO1 may contribute to GABA production via putrescine oxidation in the peroxisome of apple fruit under controlled atmosphere conditions. MdAO2 seems to be involved in deamination of 2-phenylethylamine, which is a step in the biosynthesis of 2-phenylethanol, a contributor to fruit flavor and flower fragrance.

  18. Comparative analysis of twelve Dothideomycete plant pathogens

    Energy Technology Data Exchange (ETDEWEB)

    Ohm, Robin; Aerts, Andrea; Salamov, Asaf; Goodwin, Stephen B.; Grigoriev, Igor

    2011-03-11

    The Dothideomycetes are one of the largest and most diverse groups of fungi. Many are plant pathogens and pose a serious threat to agricultural crops grown for biofuel, food or feed. Most Dothideomycetes have only a single host and related Dothideomycete species can have very diverse host plants. Twelve Dothideomycete genomes have currently been sequenced by the Joint Genome Institute and other sequencing centers. They can be accessed via Mycocosm which has tools for comparative analysis

  19. ROMANIAN COUNTY RATING MEASUREMENT. A COMPARATIVE ANALYSIS

    Directory of Open Access Journals (Sweden)

    Ioan BĂTRÂNCEA

    2016-06-01

    Full Text Available In the second wave of financial crisis, namely the sovereign debt crisis, the country’s most affected by this phenomenon are Greece, Italy, Spain, Portugal, Ireland and last year Cyprus joined. Future more the crisis in Greece in 2015 requires local authorities to evaluate constantly their rating in order to prevent bankruptcy. In this paper we conducted a comparative analysis using Altman method and the Stickney method and correlate the scores with ratings agencies Standard & Poor's and Moody's.

  20. A Comparative Analysis of Institutional Repository Software

    OpenAIRE

    2010-01-01

    This proposal outlines the design of a comparative analysis of the four institutional repository software packages that were represented at the 4th International Conference on Open Repositories held in 2009 in Atlanta, Georgia: EPrints, DSpace, Fedora and Zentity (The 4th International Conference on Open Repositories website, https://or09.library.gatech.edu). The study includes 23 qualitative and quantitative measures taken from default installations of the four repositories on a benchmark ma...

  1. 76 FR 53346 - Airworthiness Directives; The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD...

    Science.gov (United States)

    2011-08-26

    ... Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83 (MD-83), DC-9-87 (MD-87), and MD-88 Airplanes AGENCY... Jersey Avenue, SE., Washington, DC 20590. Hand Delivery: Deliver to Mail address above between 9 a.m. and...) This AD applies to The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD-83),...

  2. 76 FR 41651 - Airworthiness Directives; The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD...

    Science.gov (United States)

    2011-07-15

    ... Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83 (MD-83), DC-9-87 (MD-87), and MD-88 Airplanes AGENCY... Ground Floor, Room W12-140, 1200 New Jersey Avenue, SE., Washington, DC 20590. FOR FURTHER INFORMATION...) This AD applies to The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD-83),...

  3. A comparative analysis of frog early development.

    Science.gov (United States)

    del Pino, Eugenia M; Venegas-Ferrín, Michael; Romero-Carvajal, Andrés; Montenegro-Larrea, Paola; Sáenz-Ponce, Natalia; Moya, Iván M; Alarcón, Ingrid; Sudou, Norihiro; Yamamoto, Shinji; Taira, Masanori

    2007-07-17

    The current understanding of Xenopus laevis development provides a comparative background for the analysis of frog developmental modes. Our analysis of development in various frogs reveals that the mode of gastrulation is associated with developmental rate and is unrelated to egg size. In the gastrula of the rapidly developing embryos of the foam-nesting frogs Engystomops coloradorum and Engystomops randi, archenteron and notochord elongation overlapped with involution at the blastopore lip, as in X. laevis embryos. In embryos of dendrobatid frogs and in the frog without tadpoles Eleutherodactylus coqui, which develop somewhat more slowly than X. laevis, involution and archenteron elongation concomitantly occurred during gastrulation; whereas elongation of the notochord and, therefore, dorsal convergence and extension, occurred in the postgastrula. In contrast, in the slow developing embryos of the marsupial frog Gastrotheca riobambae, only involution occurred during gastrulation. The processes of archenteron and notochord elongation and convergence and extension were postgastrulation events. We produced an Ab against the homeodomain protein Lim1 from X. laevis as a tool for the comparative analysis of development. By the expression of Lim1, we were able to identify the dorsal side of the G. riobambae early gastrula, which otherwise was difficult to detect. Moreover, the Lim1 expression in the dorsal lip of the blastopore and notochord differed among the studied frogs, indicating variation in the timing of developmental events. The variation encountered gives evidence of the modular character of frog gastrulation.

  4. Comparative full-length sequence analysis of Marek's disease virus vaccine strain 814.

    Science.gov (United States)

    Zhang, Feng; Liu, Chang-Jun; Zhang, Yan-Ping; Li, Zhi-Jie; Liu, Ai-Ling; Yan, Fu-Hai; Cong, Feng; Cheng, Yun

    2012-01-01

    The complete DNA sequence of Marek's disease virus (MDV) serotype 1 vaccine strain 814 was determined. It consisted of 172,541 bp, with an overall gene organization identical to that of the MDV-1 type strains. Comparative genomic analysis of vaccine strains (814 and CVI988) and other strains (CU-2, Md5, and Md11) showed that 814 was most similar to CVI988. Several unique insertions, deletions, and substitutions were identified in strain 814. Of note, a 177-bp insertion in the overlapping genes encoding the Meq, RLORF6, and 23-kDa proteins of strain 814 was identified, and a 69-bp deletion was also located in the origin of replication site (Ori) in the gene encoding RLORF12. Compared to the CVI988 vaccine strain, a deletion of 510 bp was identified in the UL36 gene. These analyses identified key mutations in the 814 strain and the vaccine strain that could be exploited for future MDV vaccine design.

  5. Inpatient care in Kazakhstan: A comparative analysis

    Directory of Open Access Journals (Sweden)

    Ainur B Kumar

    2013-01-01

    Full Text Available Background: Reforms in inpatient care are critical for the enhancement of the efficiency of health systems. It still remains the main costly sector of the health system, accounting for more than 60% of all expenditures. Inappropriate and ineffective use of the hospital infrastructure is also a big issue. We aimed to analyze statistical data on health indices and dynamics of the hospital stock in Kazakhstan in comparison with those of developed countries. Materials and Methods: Study design is comparative quantitative analysis of inpatient care indicators. We used information and analytical methods, content analysis, mathematical treatment, and comparative analysis of statistical data on health system and dynamics of hospital stock in Kazakhstan and some other countries of the world [Organization for Economic Cooperation and Development (OECD, USA, Canada, Russia, China, Japan, and Korea] over the period 2001-2011. Results : Despite substantial and continuous reductions over the past 10 years, hospitalization rates in Kazakhstan still remain high compared to some developed countries, including those of the OECD. In fact, the hospital stay length for all patients in Kazakhstan in 2011 is around 9.9 days, hospitalization ratio per 100 people is 16.3, and hospital beds capacity is 100 per 10,000 inhabitants. Conclusion: The decreased level of beds may adversely affect both medical organization and health system operations. Alternatives to the existing inpatient care are now being explored. The introduction of the unified national healthcare system allows shifting the primary focus on primary care organizations, which can decrease the demand on inpatient care as a result of improving the health status of people at the primary care level.

  6. Comparative Analysis of Hand Gesture Recognition Techniques

    Directory of Open Access Journals (Sweden)

    Arpana K. Patel

    2015-03-01

    Full Text Available During past few years, human hand gesture for interaction with computing devices has continues to be active area of research. In this paper survey of hand gesture recognition is provided. Hand Gesture Recognition is contained three stages: Pre-processing, Feature Extraction or matching and Classification or recognition. Each stage contains different methods and techniques. In this paper define small description of different methods used for hand gesture recognition in existing system with comparative analysis of all method with its benefits and drawbacks are provided.

  7. Greenfields and acquisitions: a comparative analysis

    Directory of Open Access Journals (Sweden)

    Nicolae MARINESCU

    2016-07-01

    Full Text Available This paper compares greenfields and acquisitions as foreign direct investment (FDI alternatives used by transnational corporations (TNCs. First, the determinants leading to the choice of companies between the two modes of entry into a foreign market are laid out. Then, specific features of each alternative are highlighted, by contrasting the advantages and disadvantages of both types of FDI. Based on this analysis, some conclusions are drawn in the end concerning the most important factors that influence the decision of a company whether to choose a greenfield investment or an acquisition.

  8. Comparative genome analysis of Basidiomycete fungi

    Energy Technology Data Exchange (ETDEWEB)

    Riley, Robert; Salamov, Asaf; Henrissat, Bernard; Nagy, Laszlo; Brown, Daren; Held, Benjamin; Baker, Scott; Blanchette, Robert; Boussau, Bastien; Doty, Sharon L.; Fagnan, Kirsten; Floudas, Dimitris; Levasseur, Anthony; Manning, Gerard; Martin, Francis; Morin, Emmanuelle; Otillar, Robert; Pisabarro, Antonio; Walton, Jonathan; Wolfe, Ken; Hibbett, David; Grigoriev, Igor

    2013-08-07

    Fungi of the phylum Basidiomycota (basidiomycetes), make up some 37percent of the described fungi, and are important in forestry, agriculture, medicine, and bioenergy. This diverse phylum includes symbionts, pathogens, and saprotrophs including the majority of wood decaying and ectomycorrhizal species. To better understand the genetic diversity of this phylum we compared the genomes of 35 basidiomycetes including 6 newly sequenced genomes. These genomes span extremes of genome size, gene number, and repeat content. Analysis of core genes reveals that some 48percent of basidiomycete proteins are unique to the phylum with nearly half of those (22percent) found in only one organism. Correlations between lifestyle and certain gene families are evident. Phylogenetic patterns of plant biomass-degrading genes in Agaricomycotina suggest a continuum rather than a dichotomy between the white rot and brown rot modes of wood decay. Based on phylogenetically-informed PCA analysis of wood decay genes, we predict that that Botryobasidium botryosum and Jaapia argillacea have properties similar to white rot species, although neither has typical ligninolytic class II fungal peroxidases (PODs). This prediction is supported by growth assays in which both fungi exhibit wood decay with white rot-like characteristics. Based on this, we suggest that the white/brown rot dichotomy may be inadequate to describe the full range of wood decaying fungi. Analysis of the rate of discovery of proteins with no or few homologs suggests the value of continued sequencing of basidiomycete fungi.

  9. Comparative transcriptome analysis of four prymnesiophyte algae.

    Science.gov (United States)

    Koid, Amy E; Liu, Zhenfeng; Terrado, Ramon; Jones, Adriane C; Caron, David A; Heidelberg, Karla B

    2014-01-01

    Genomic studies of bacteria, archaea and viruses have provided insights into the microbial world by unveiling potential functional capabilities and molecular pathways. However, the rate of discovery has been slower among microbial eukaryotes, whose genomes are larger and more complex. Transcriptomic approaches provide a cost-effective alternative for examining genetic potential and physiological responses of microbial eukaryotes to environmental stimuli. In this study, we generated and compared the transcriptomes of four globally-distributed, bloom-forming prymnesiophyte algae: Prymnesium parvum, Chrysochromulina brevifilum, Chrysochromulina ericina and Phaeocystis antarctica. Our results revealed that the four transcriptomes possess a set of core genes that are similar in number and shared across all four organisms. The functional classifications of these core genes using the euKaryotic Orthologous Genes (KOG) database were also similar among the four study organisms. More broadly, when the frequencies of different cellular and physiological functions were compared with other protists, the species clustered by both phylogeny and nutritional modes. Thus, these clustering patterns provide insight into genomic factors relating to both evolutionary relationships as well as trophic ecology. This paper provides a novel comparative analysis of the transcriptomes of ecologically important and closely related prymnesiophyte protists and advances an emerging field of study that uses transcriptomics to reveal ecology and function in protists.

  10. Comparative transcriptome analysis of four prymnesiophyte algae.

    Directory of Open Access Journals (Sweden)

    Amy E Koid

    Full Text Available Genomic studies of bacteria, archaea and viruses have provided insights into the microbial world by unveiling potential functional capabilities and molecular pathways. However, the rate of discovery has been slower among microbial eukaryotes, whose genomes are larger and more complex. Transcriptomic approaches provide a cost-effective alternative for examining genetic potential and physiological responses of microbial eukaryotes to environmental stimuli. In this study, we generated and compared the transcriptomes of four globally-distributed, bloom-forming prymnesiophyte algae: Prymnesium parvum, Chrysochromulina brevifilum, Chrysochromulina ericina and Phaeocystis antarctica. Our results revealed that the four transcriptomes possess a set of core genes that are similar in number and shared across all four organisms. The functional classifications of these core genes using the euKaryotic Orthologous Genes (KOG database were also similar among the four study organisms. More broadly, when the frequencies of different cellular and physiological functions were compared with other protists, the species clustered by both phylogeny and nutritional modes. Thus, these clustering patterns provide insight into genomic factors relating to both evolutionary relationships as well as trophic ecology. This paper provides a novel comparative analysis of the transcriptomes of ecologically important and closely related prymnesiophyte protists and advances an emerging field of study that uses transcriptomics to reveal ecology and function in protists.

  11. 76 FR 39251 - Airworthiness Directives; The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD...

    Science.gov (United States)

    2011-07-06

    ... Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83 (MD-83), DC-9-87 (MD-87), and MD-88 Airplanes AGENCY... Jersey Avenue, SE., Washington, DC 20590. FOR FURTHER INFORMATION CONTACT: Roger Durbin, Aerospace.... Applicability (c) This AD applies to all The Boeing Company Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83...

  12. 76 FR 1993 - Airworthiness Directives; The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD...

    Science.gov (United States)

    2011-01-12

    ... Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83 (MD-83), DC-9-87 (MD-87), and MD-88 Airplanes AGENCY... Ground Floor, Room W12-140, 1200 New Jersey Avenue, SE., Washington, DC 20590. FOR FURTHER INFORMATION.... Applicability (c) This AD applies to The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83...

  13. 76 FR 13543 - Airworthiness Directives; The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD...

    Science.gov (United States)

    2011-03-14

    ... Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83 (MD-83), DC-9-87 (MD-87), and MD-88 Airplanes AGENCY... Floor, Room W12-140, 1200 New Jersey Avenue, SE., Washington, DC 20590. Hand Delivery: Deliver to Mail... stabilizer is similar in design and loading to that of the Model DC-9-81 (MD-81), DC- 9-82 (MD-82),...

  14. Comparative Genome Analysis of Basidiomycete Fungi

    Energy Technology Data Exchange (ETDEWEB)

    Riley, Robert; Salamov, Asaf; Morin, Emmanuelle; Nagy, Laszlo; Manning, Gerard; Baker, Scott; Brown, Daren; Henrissat, Bernard; Levasseur, Anthony; Hibbett, David; Martin, Francis; Grigoriev, Igor

    2012-03-19

    Fungi of the phylum Basidiomycota (basidiomycetes), make up some 37percent of the described fungi, and are important in forestry, agriculture, medicine, and bioenergy. This diverse phylum includes the mushrooms, wood rots, symbionts, and plant and animal pathogens. To better understand the diversity of phenotypes in basidiomycetes, we performed a comparative analysis of 35 basidiomycete fungi spanning the diversity of the phylum. Phylogenetic patterns of lignocellulose degrading genes suggest a continuum rather than a sharp dichotomy between the white rot and brown rot modes of wood decay. Patterns of secondary metabolic enzymes give additional insight into the broad array of phenotypes found in the basidiomycetes. We suggest that the profile of an organism in lignocellulose-targeting genes can be used to predict its nutritional mode, and predict Dacryopinax sp. as a brown rot; Botryobasidium botryosum and Jaapia argillacea as white rots.

  15. Comparative Analysis of VNSA Complex Engineering Efforts

    Directory of Open Access Journals (Sweden)

    Gary Ackerman

    2016-03-01

    Full Text Available The case studies undertaken in this special issue demonstrate unequivocally that, despite being forced to operate clandestinely and facing the pressures of security forces seeking to hunt them down and neutralize them, at least a subset of violent non-state actors (VNSAs are capable of some genuinely impressive feats of engineering. At the same time, success in such endeavours is not guaranteed and VNSAs will undoubtedly face a number of obstacles along the way. A comparative analysis of the cases also reveals new insights about the factors influencing the decision to pursue complex engineering efforts, the implementation of such decisions and the determinants of the ultimate outcome. These result in a set of hypotheses and indicators that, if confirmed by future research, can contribute to both operational and strategic intelligence assessments. Overall, the current study enriches our understanding of how and why VNSAs might engage in complex engineering efforts.

  16. Cavity Voltage Phase Modulation MD

    CERN Document Server

    Mastoridis, Themistoklis; Molendijk, John; Timko, Helga; CERN. Geneva. ATS Department

    2016-01-01

    The LHC RF/LLRF system is currently configured for extremely stable RF voltage to minimize transient beam loading effects. The present scheme cannot be extended beyond nominal beam current since the demanded power would exceed the peak klystron power and lead to saturation. A new scheme has therefore been proposed: for beam currents above nominal (and possibly earlier), the cavity phase modulation by the beam will not be corrected (transient beam loading), but the strong RF feedback and One-Turn Delay feedback will still be active for loop and beam stability in physics. To achieve this, the voltage set point will be adapted for each bunch. The goal of this MD was to test a new algorithm that would adjust the voltage set point to achieve the cavity phase modulation that would minimize klystron forward power.

  17. Comparative Analysis of Students’ Media Competences Levels

    Directory of Open Access Journals (Sweden)

    Alexander Fedorov

    2015-08-01

    Full Text Available This article analyzed the results of survey of university students’ media literacy competence (on the base of a classification of indicators of media literacy competence of the audience as an effective tool for comparative analysis of the levels of development of media competence of students of the control and experimental groups: the level of media competence of students who have a one-year training course in the framework of media literacy education courses four times higher than in similar indicators in the control group. Analysis of the results of this survey confirmed the general trend of media contacts of student audience – its orientation to entertainment genres of audiovisual media, visually appealing; positive, active, unmarried, childless, educated, highly qualified characters (primarily – male characters aged 19 to 35 years. These heroes are characteristic optimism, independence, intelligence, emotion. They have an excellent command of the life situation and have a positive impact on the development progress of the plot of a media text.

  18. A Comparative Analysis of Biomarker Selection Techniques

    Directory of Open Access Journals (Sweden)

    Nicoletta Dessì

    2013-01-01

    Full Text Available Feature selection has become the essential step in biomarker discovery from high-dimensional genomics data. It is recognized that different feature selection techniques may result in different set of biomarkers, that is, different groups of genes highly correlated to a given pathological condition, but few direct comparisons exist which quantify these differences in a systematic way. In this paper, we propose a general methodology for comparing the outcomes of different selection techniques in the context of biomarker discovery. The comparison is carried out along two dimensions: (i measuring the similarity/dissimilarity of selected gene sets; (ii evaluating the implications of these differences in terms of both predictive performance and stability of selected gene sets. As a case study, we considered three benchmarks deriving from DNA microarray experiments and conducted a comparative analysis among eight selection methods, representatives of different classes of feature selection techniques. Our results show that the proposed approach can provide useful insight about the pattern of agreement of biomarker discovery techniques.

  19. The Efficacy of Acupuncture for Treating Depression-Related Insomnia Compared with a Control Group: A Systematic Review and Meta-Analysis

    Directory of Open Access Journals (Sweden)

    Bo Dong

    2017-01-01

    Full Text Available Objective. To evaluate the effectiveness of acupuncture as monotherapy and as an alternative therapy in treating depression-related insomnia. Data Source. Seven databases were searched starting from 1946 to March 30, 2016. Study Eligibility Criteria. Randomized-controlled trials of adult subjects (18–75 y who had depression-related insomnia and had received acupuncture. Results. 18 randomized-controlled clinical trials (RCTs were introduced in this meta-analysis. The findings determined that the acupuncture treatment made significant improvements in PSQI score (MD = −2.37, 95% CI −3.52 to −1.21 compared with Western medicine. Acupuncture combined with Western medicine had a better effect on improving sleep quality (MD = −2.63, 95% CI −4.40 to −0.86 compared with the treatment of Western medicine alone. There was no statistical difference (MD = −2.76, 95% CI −7.65 to 2.12 between acupuncture treatment and Western medicine towards improving the HAMD score. Acupuncture combined with Western medicine (MD = −5.46, CI −8.55 to −2.38 had more effect on improving depression degree compared with the Western medicine alone. Conclusion. This systematic review indicates that acupuncture could be an alternative therapy to medication for treating depression-related insomnia.

  20. The Efficacy of Acupuncture for Treating Depression-Related Insomnia Compared with a Control Group: A Systematic Review and Meta-Analysis

    Science.gov (United States)

    Dong, Bo; Chen, Zeqin; Yin, Xuan; Li, Danting; Ma, Jie; Yin, Ping; Cao, Yan

    2017-01-01

    Objective. To evaluate the effectiveness of acupuncture as monotherapy and as an alternative therapy in treating depression-related insomnia. Data Source. Seven databases were searched starting from 1946 to March 30, 2016. Study Eligibility Criteria. Randomized-controlled trials of adult subjects (18–75 y) who had depression-related insomnia and had received acupuncture. Results. 18 randomized-controlled clinical trials (RCTs) were introduced in this meta-analysis. The findings determined that the acupuncture treatment made significant improvements in PSQI score (MD = −2.37, 95% CI −3.52 to −1.21) compared with Western medicine. Acupuncture combined with Western medicine had a better effect on improving sleep quality (MD = −2.63, 95% CI −4.40 to −0.86) compared with the treatment of Western medicine alone. There was no statistical difference (MD = −2.76, 95% CI −7.65 to 2.12) between acupuncture treatment and Western medicine towards improving the HAMD score. Acupuncture combined with Western medicine (MD = −5.46, CI −8.55 to −2.38) had more effect on improving depression degree compared with the Western medicine alone. Conclusion. This systematic review indicates that acupuncture could be an alternative therapy to medication for treating depression-related insomnia. PMID:28286776

  1. Minimalist models for proteins: a comparative analysis.

    Science.gov (United States)

    Tozzini, Valentina

    2010-08-01

    The last decade has witnessed a renewed interest in the coarse-grained (CG) models for biopolymers, also stimulated by the needs of modern molecular biology, dealing with nano- to micro-sized bio-molecular systems and larger than microsecond timescale. This combination of size and timescale is, in fact, hard to access by atomic-based simulations. Coarse graining the system is a route to be followed to overcome these limits, but the ways of practically implementing it are many and different, making the landscape of CG models very vast and complex. In this paper, the CG models are reviewed and their features, applications and performances compared. This analysis, restricted to proteins, focuses on the minimalist models, namely those reducing at minimum the number of degrees of freedom without losing the possibility of explicitly describing the secondary structures. This class includes models using a single or a few interacting centers (beads) for each amino acid. From this analysis several issues emerge. The difficulty in building these models resides in the need for combining transferability/predictive power with the capability of accurately reproducing the structures. It is shown that these aspects could be optimized by accurately choosing the force field (FF) terms and functional forms, and combining different parameterization procedures. In addition, in spite of the variety of the minimalist models, regularities can be found in the parameters values and in FF terms. These are outlined and schematically presented with the aid of a generic phase diagram of the polypeptide in the parameter space and, hopefully, could serve as guidelines for the development of minimalist models incorporating the maximum possible level of predictive power and structural accuracy.

  2. Halo Scraping, Diffusion and Repopulation MD

    CERN Document Server

    Valentino, G; Bruce, R; Burkart, F; Redaelli, F; Salvachua, B; Previtali, V; Stancari, G; Valishev, A

    2012-01-01

    Beam halo measurements in the LHC were conducted through collimator scrapings in an MD carried out on the 22nd June 2012 for the first time at 4 TeV. The time evolution of losses during a collimator scan provides information on halo diffusion and population. Four scans were performed with two collimators in the vertical and horizontal plane in B1 and B2 respectively, before and after bringing the beams into collisions. During an inward step, the beam losses measured at the BLMs for the first 3 seconds are believed to be dominated by multi-turn halo removal by the collimator jaw. However, a good comparison was found between fits of the diffusion model and the subsequent loss decay. In addition, the fitted diffusion coefficients compare well to the coefficients estimated from the core emittance growth rates as a function of action.

  3. Comparative analysis of safety related site characteristics

    Energy Technology Data Exchange (ETDEWEB)

    Andersson, Johan (ed.)

    2010-12-15

    This document presents a comparative analysis of site characteristics related to long-term safety for the two candidate sites for a final repository for spent nuclear fuel in Forsmark (municipality of Oesthammar) and in Laxemar (municipality of Oskarshamn) from the point of view of site selection. The analyses are based on the updated site descriptions of Forsmark /SKB 2008a/ and Laxemar /SKB 2009a/, together with associated updated repository layouts and designs /SKB 2008b and SKB 2009b/. The basis for the comparison is thus two equally and thoroughly assessed sites. However, the analyses presented here are focussed on differences between the sites rather than evaluating them in absolute terms. The document serves as a basis for the site selection, from the perspective of long-term safety, in SKB's application for a final repository. A full evaluation of safety is made for a repository at the selected site in the safety assessment SR-Site /SKB 2011/, referred to as SR-Site main report in the following

  4. Comparative Analysis of Virtual Education Applications

    Directory of Open Access Journals (Sweden)

    Mehmet KURT

    2006-10-01

    Full Text Available The research was conducted in order to make comparative analysis of virtual education applications. The research is conducted in survey model. The study group consists of total 300 institutes providing virtual education in the fall, spring and summer semesters of 2004; 246 in USA, 10 in Australia, 3 in South Africa, 10 in India, 21 in UK, 6 in Japan, 4 in Turkey. The information has been collected by online questionnaire sent to the target mass by e-mail. The questionnaire has been developed in two information categories as personal information and institutes and their virtual education applications. The English web design of the online questionnaire and the database has been prepared by Microsoft ASP codes which is the script language of Microsoft Front Page editor and has been tested on personal web site. The questionnaire has been pre applied in institutions providing virtual education in Australia. The English text of the questionnaire and web site design have been sent to educational technology and virtual education specialists in the countries of the study group. With the feedback received, the spelling mistakes have been corrected and concept and language validity have been completed. The application of the questionnaire has taken 40 weeks during March-November 2004. Only 135 institutes have replied. Two of the questionnaires have been discharged because they included mistaken coding, names of the institutions and countries. Valid 133 questionnaires cover approximately 44% of the study group. Questionnaires saved in the online database have been transferred to Microsoft Excel and then to SPSS by external database connection. In regards of the research objectives, the data collected has been analyzed on computer and by using SPSS statistics package program. In data analysis frequency (f, percentage (% and arithmetic mean ( have been used. In comparisons of country, institute, year, and other variables, che-square test, independent t

  5. MD SIMULATION OF SUBTILISIN BPN' IN A CRYSTAL ENVIRONMENT

    NARCIS (Netherlands)

    HEINER, AP; BERENDSEN, HJC; VANGUNSTEREN, WF

    1992-01-01

    In this paper we present a molecular dynamics (MD) simulation of subtilisin BPN' in a crystalline environment containing four protein molecules and solvent. Conformational and dynamic properties of the molecules are compared with each other and with respect to the X-ray structure to test the validit

  6. A comparative analysis of influenza vaccination programs.

    Directory of Open Access Journals (Sweden)

    Shweta Bansal

    2006-10-01

    Full Text Available BACKGROUND: The threat of avian influenza and the 2004-2005 influenza vaccine supply shortage in the United States have sparked a debate about optimal vaccination strategies to reduce the burden of morbidity and mortality caused by the influenza virus. METHODS AND FINDINGS: We present a comparative analysis of two classes of suggested vaccination strategies: mortality-based strategies that target high-risk populations and morbidity-based strategies that target high-prevalence populations. Applying the methods of contact network epidemiology to a model of disease transmission in a large urban population, we assume that vaccine supplies are limited and then evaluate the efficacy of these strategies across a wide range of viral transmission rates and for two different age-specific mortality distributions. We find that the optimal strategy depends critically on the viral transmission level (reproductive rate of the virus: morbidity-based strategies outperform mortality-based strategies for moderately transmissible strains, while the reverse is true for highly transmissible strains. These results hold for a range of mortality rates reported for prior influenza epidemics and pandemics. Furthermore, we show that vaccination delays and multiple introductions of disease into the community have a more detrimental impact on morbidity-based strategies than mortality-based strategies. CONCLUSIONS: If public health officials have reasonable estimates of the viral transmission rate and the frequency of new introductions into the community prior to an outbreak, then these methods can guide the design of optimal vaccination priorities. When such information is unreliable or not available, as is often the case, this study recommends mortality-based vaccination priorities.

  7. AUDITOR ROTATION - A CRITICAL AND COMPARATIVE ANALYSIS

    Directory of Open Access Journals (Sweden)

    Mocanu Mihaela

    2011-12-01

    Full Text Available The present paper starts out from the challenge regarding auditor tenure launched in 2010 by the Green Paper of the European Commission Audit Policy: Lessons from the Crisis. According to this document, the European Commission speaks both in favor of the mandatory rotation of the audit firm, and in favor of the mandatory rotation of audit partners. Rotation is considered a solution to mitigate threats to independence generated by familiarity, intimidation and self-interest in the context of a long-term audit-client relationship. At international level, there are several studies on auditor rotation, both empirical (e.g. Lu and Sivaramakrishnan, 2009, Li, 2010, Kaplan and Mauldin, 2008, Jackson et al., 2008 and normative in nature (e.g. Marten et al., 2007, Muller, 2006 and Gelter, 2004. The objective of the present paper is to perform a critical and comparative analysis of the regulations on internal and external rotation in force at international level, in the European Union and in the United States of America. Moreover, arguments both in favor and against mandatory rotation are brought into discussion. With regard to the research design, the paper has a normative approach. The main findings are first of all that by comparison, all regulatory authorities require internal rotation at least in the case of public interest entities, while the external rotation is not in the focus of the regulators. In general, the most strict and detailed requirements are those issued by the Securities and Exchange Commission from the United States of America. Second of all, in favor of mandatory rotation speaks the fact that the auditor becomes less resilient in case of divergence of opinions between him and company management, less stimulated to follow his own interest, and more scrupulous in conducting the audit. However, mandatory rotation may also have negative consequences, thus the debate on the opportunity of this regulatory measure remains open-ended.

  8. Fast Collision Attack on MD5

    NARCIS (Netherlands)

    M.M.J. Stevens (Marc)

    2006-01-01

    textabstractIn this paper, we present an improved attack algorithm to find two-block collisions of the hash function MD5. The attack uses the same differential path of MD5 and the set of sufficient conditions that was presented by Wang et al. We present a new technique which allows us to

  9. Fast Collision Attack on MD5

    NARCIS (Netherlands)

    Stevens, M.M.J.

    2006-01-01

    In this paper, we present an improved attack algorithm to find two-block collisions of the hash function MD5. The attack uses the same differential path of MD5 and the set of sufficient conditions that was presented by Wang et al. We present a new technique which allows us to deterministically fulfi

  10. Harvesting graphics power for MD simulations

    NARCIS (Netherlands)

    van Meel, J.A.; Arnold, A.; Frenkel, D.; Portegies Zwart, S.F.; Belleman, R.G.

    2008-01-01

    We discuss an implementation of molecular dynamics (MD) simulations on a graphic processing unit (GPU) in the NVIDIA CUDA language. We tested our code on a modern GPU, the NVIDIA GeForce 8800 GTX. Results for two MD algorithms suitable for short-ranged and long-ranged interactions, and a congruentia

  11. PoopMD, a Mobile Health Application, Accurately Identifies Infant Acholic Stools.

    Directory of Open Access Journals (Sweden)

    Amy Franciscovich

    Full Text Available Biliary atresia (BA is the leading cause of pediatric end-stage liver disease in the United States. Education of parents in the perinatal period with stool cards depicting acholic and normal stools has been associated with improved time-to-diagnosis and survival in BA. PoopMD is a mobile application that utilizes a smartphone's camera and color recognition software to analyze an infant's stool and determine if additional follow-up is indicated. PoopMD was developed using custom HTML5/CSS3 and wrapped to work on iOS and Android platforms. In order to define the gold standard regarding stool color, seven pediatricians were asked to review 45 photographs of infant stool and rate them as acholic, normal, or indeterminate. Samples for which 6+ pediatricians demonstrated agreement defined the gold standard, and only these samples were included in the analysis. Accuracy of PoopMD was assessed using an iPhone 5s with incandescent lighting. Variability in analysis of stool photographs as acholic versus normal with intermediate rating weighted as 50% agreement (kappa was compared between three laypeople and one expert user. Variability in output was also assessed between an iPhone 5s and a Samsung Galaxy S4, as well as between incandescent lighting and compact fluorescent lighting. Six-plus pediatricians agreed on 27 normal and 7 acholic photographs; no photographs were defined as indeterminate. The sensitivity was 7/7 (100%. The specificity was 24/27 (89% with 3/27 labeled as indeterminate; no photos of normal stool were labeled as acholic. The Laplace-smoothed positive likelihood ratio was 6.44 (95% CI 2.52 to 16.48 and the negative likelihood ratio was 0.13 (95% CI 0.02 to 0.83. kappauser was 0.68, kappaphone was 0.88, and kappalight was 0.81. Therefore, in this pilot study, PoopMD accurately differentiates acholic from normal color with substantial agreement across users, and almost perfect agreement across two popular smartphones and ambient light

  12. First thoughts on MD priorities for 2012

    CERN Document Server

    Zimmermann, F; Assmann, R

    2012-01-01

    In 2012, 22 days of beam time will be allocated for LHC MDs. In this paper, after recalling the 2011 LHC MD experience, the MD rrequests for 2012 are reviewed. Three primary MD themes for 2012 can be identified: 1)pushing performance in 2012, 2)preparing for 2014/15, and 3)towards maximum luminosity. Example topics include emittance growth in collision or enhanced satellites for theme 1), 25 ns operation for 2), and ATS optics for 3). Structures lists of MD requests and topics for each theme as well as some initial thoughts on the MD priorities are presented. For certain topics, "start-of-fill MDs" are proposed in order to most efficiently use of the available beam time.

  13. 76 FR 52225 - Airworthiness Directives; The Boeing Company Model DC-9-81 (MD-81), DC-9-82 (MD-82), DC-9-83 (MD...

    Science.gov (United States)

    2011-08-22

    ... Model DC-9-81 (MD- 81), DC-9-82 (MD-82), DC-9-83 (MD-83), DC-9-87 (MD-87), and MD-88 Airplanes AGENCY... Ground Floor, Room W12-140, 1200 New Jersey Avenue, SE., Washington, DC 20590. FOR FURTHER INFORMATION... ADs (b) None. Applicability (c) This AD applies to The Boeing Company Model DC-9-81 (MD-81),...

  14. Comparative naval architecture analysis of diesel submarines

    OpenAIRE

    Torkelson, Kai Oscar

    2005-01-01

    CIVINS Many comparative naval architecture analyses of surface ships have been performed, but few published comparative analyses of submarines exist. Of the several design concept papers, reports and studies that have been written on submarines, no exclusively diesel submarine comparative naval architecture analyses have been published. One possible reason for few submarine studies may be the lack of complete and accurate information regarding the naval architecture of foreign diesel subma...

  15. 散列算法MD5和SHA-1的比较%Comparison between MD5 and SHA-1

    Institute of Scientific and Technical Information of China (English)

    王泽; 曹莉莎

    2016-01-01

    MD5 and SHA-1 are the two known Hash Algorithm which are widely applied in information security, they are both developed from MD4.This paper introduces their algorithm logic in detail, compares them though simulation experiment ,soft-ware testing, etc. Finally, it draw a conclusion:The SHA-1 algorithm is more secure than the MD5 algorithm, but in the same hardware, SHA-1 is slower than MD5.%MD5和SHA-1是两个已知的广泛应用于信息安全的散列算法,均由MD4发展而来。详细介绍了它们的算法逻辑,并通过模拟实验、软件测试等方式对其在各个方面进行比较,最终得出结论:SHA-1算法比MD5算法的安全性更高,但在同一硬件上,SHA-1比MD5运行的要慢。

  16. Comparing Results from Constant Comparative and Computer Software Methods: A Reflection about Qualitative Data Analysis

    Science.gov (United States)

    Putten, Jim Vander; Nolen, Amanda L.

    2010-01-01

    This study compared qualitative research results obtained by manual constant comparative analysis with results obtained by computer software analysis of the same data. An investigated about issues of trustworthiness and accuracy ensued. Results indicated that the inductive constant comparative data analysis generated 51 codes and two coding levels…

  17. Comparing Results from Constant Comparative and Computer Software Methods: A Reflection about Qualitative Data Analysis

    Science.gov (United States)

    Putten, Jim Vander; Nolen, Amanda L.

    2010-01-01

    This study compared qualitative research results obtained by manual constant comparative analysis with results obtained by computer software analysis of the same data. An investigated about issues of trustworthiness and accuracy ensued. Results indicated that the inductive constant comparative data analysis generated 51 codes and two coding levels…

  18. Human Capital Development: Comparative Analysis of BRICs

    Science.gov (United States)

    Ardichvili, Alexandre; Zavyalova, Elena; Minina, Vera

    2012-01-01

    Purpose: The goal of this article is to conduct macro-level analysis of human capital (HC) development strategies, pursued by four countries commonly referred to as BRICs (Brazil, Russia, India, and China). Design/methodology/approach: This analysis is based on comparisons of macro indices of human capital and innovativeness of the economy and a…

  19. Human Capital Development: Comparative Analysis of BRICs

    Science.gov (United States)

    Ardichvili, Alexandre; Zavyalova, Elena; Minina, Vera

    2012-01-01

    Purpose: The goal of this article is to conduct macro-level analysis of human capital (HC) development strategies, pursued by four countries commonly referred to as BRICs (Brazil, Russia, India, and China). Design/methodology/approach: This analysis is based on comparisons of macro indices of human capital and innovativeness of the economy and a…

  20. Question analysis for Indonesian comparative question

    Science.gov (United States)

    Saelan, A.; Purwarianti, A.; Widyantoro, D. H.

    2017-01-01

    Information seeking is one of human needs today. Comparing things using search engine surely take more times than search only one thing. In this paper, we analyzed comparative questions for comparative question answering system. Comparative question is a question that comparing two or more entities. We grouped comparative questions into 5 types: selection between mentioned entities, selection between unmentioned entities, selection between any entity, comparison, and yes or no question. Then we extracted 4 types of information from comparative questions: entity, aspect, comparison, and constraint. We built classifiers for classification task and information extraction task. Features used for classification task are bag of words, whether for information extraction, we used lexical, 2 previous and following words lexical, and previous label as features. We tried 2 scenarios: classification first and extraction first. For classification first, we used classification result as a feature for extraction. Otherwise, for extraction first, we used extraction result as features for classification. We found that the result would be better if we do extraction first before classification. For the extraction task, classification using SMO gave the best result (88.78%), while for classification, it is better to use naïve bayes (82.35%).

  1. 苹果内根-贝壳杉烯合成酶基因的克隆及表达分析%Cloning and Expression Analysis of Ent-Kaurene Synthase Gene MdKS in Apple(Malus domestica Borkh)

    Institute of Scientific and Technical Information of China (English)

    邓晓云; 戴洪义; 梁美霞

    2013-01-01

      以柱型苹果茎尖为试材,采用同源克隆的方法克隆得到赤霉素合成代谢关键酶内根-贝壳杉烯合成酶的cDNA全长序列,命名为MdKS。 MdKS的开放阅读框(ORF)全长2214 bp,编码737个氨基酸。 KS属于萜类合成酶亚家族,具有DDXXD保守结构域。氨基酸聚类分析表明,MdKS与梨同源性最高,为98%,其次是板栗,为73%;实时荧光定量PCR分析表明,在苹果的生长季节,MdKS基因在柱型和普通型苹果中均能表达。在苹果的生长初期,普通型苹果MdKS基因的表达量均明显高于柱型苹果,而在6月初,其表达量却略低于柱型苹果。%Ent-kaurene synthase(KS) is a critical enzyme in the pathway of gibberellins biosynthesis .In this research,ent-kaurene synthase gene in columnar apple ,designated as MdKS,was isolated from apple(Malus domes-tica Borkh)stem apical tissue by homologous cloning technology .The full-length cDNA consisted of 2 214 nucleo-tides encoding a putative protein of 737 amino acids.MdKS contained a core functional domain DDXXD of plant class terpene synthase.Amino acids cluster analysis showed that KS from apple was highly homologous with PpKS firstly,had 98%similarity,and followed by that from Castanea sativa ,had 73%similarity.The Real-time quantita-tive PCR analysis showed that MdKS gene were always expressed in columnar and standard apple trees during the growing season.In the early growing season,the MdKS of standard apples were expressed at higher level than that of columnar apples,but on early June,it was opposite.

  2. Alternatively spliced myeloid differentiation protein-2 (MD-2s) protein inhibits TLR4-mediated lung inflammation

    Science.gov (United States)

    Tumurkhuu, Gantsetseg; Dagvadorj, Jargalsaikhan; Jones, Heather D.; Chen, Shuang; Shimada, Kenichi; Crother, Timothy R.; Arditi, Moshe

    2014-01-01

    We previously identified a novel alternatively spliced isoform of human myeloid differentiation protein-2 (MD-2s) that competitively inhibits binding of MD-2 to TLR4 in vitro. Here we investigated the protective role of MD-2s in LPS-induced acute lung injury by delivering intracheally (i.t.) an adenovirus construct that expressed MD-2s (Ad-MD-2s). After adenovirus-mediated gene transfer, MD-2s was strongly expressed in lung epithelial cells and readily detected in bronchoalveolar lavage fluid (BALF). Compared to Ad-EV control mice, Ad-MD-2s delivery resulted in significantly less LPS-induced inflammation in the lungs, including less protein leakage, cell recruitment, and expression of proinflammatory cytokines and chemokines, such as IL-6, KC, and MIP-2. BALF from Ad-MD-2s mice transferred into lungs of naive mice before i.t. LPS challenge diminished pro-inflammatory cytokine levels. As house dust mite (HDM) sensitization is dependent on TLR4 and HDM Der p 2, a structural homolog of MD-2, we also investigated the effect of MD-2s on house dust mite (HDM)-induced allergic airway inflammation. Ad-MD-2s given before HDM sensitization significantly inhibited subsequent allergic airway inflammation after HDM challenge, including reductions in eosinophils, goblet cell hyperplasia, and IL-5 levels. Our study indicates that the alternatively spliced short isoform of human MD-2 could be a potential therapeutic candidate to treat human diseases induced or exacerbated by TLR4 signaling, such as Gram-negative bacterial endotoxin-induced lung injury and house dust mite-triggered allergic lung inflammation. PMID:25576596

  3. Comparative Analysis of Competitive Strategy Implementation

    OpenAIRE

    Maina A. S. Waweru

    2011-01-01

    This paper presents research findings on Competitive Strategy Implementation which compared the levels of strategy implementation achieved by different generic strategy groups, comprising firms inclined towards low cost leadership, differentiation or dual strategic advantage. The study sought to determine the preferences for use of implementation armaments and compared how such armaments related to the level of implementation achieved. Respondents comprised 71 top executives from 59 companies...

  4. Comparative analysis of seismic risk assessment methodology

    Energy Technology Data Exchange (ETDEWEB)

    Park, Chang Kyoo; Kim, Tae Woon; Hwang, Mi Jung [Korea Atomic Energy Research Institute, Taejon (Korea, Republic of)

    1994-07-01

    SRA methodologies are separated into SPSA and SMM. SPSA methodology that has been widely used for seismic risk analysis has two kinds of methodologies such as Zion method and SSMRP method. SPSA methodology is suitable to interfacing with the analysis of internal event. However, the results of SPSA have uncertainties because of uncertainties in seismic hazard analysis and subjective judgement. Zion method specially developed for commercial use is less expensive and less time consuming but more uncertain than SSMRP method, since the former performs the fragility analysis less in detail than the latter. SMM is impossible to interface with the analysis of internal event but the uncertainties that are occurred during seismic hazard analysis is reduced because of the screening using RLE (review level earthquake). Therefore, if SPSA-based SMM methodology is chosen to be developed, the results of SRA will be more reliable and it requires low costs and time. In addition, the new methodology will require the development of a new evaluating code for SRA. (Author) 26 refs., 25 figs., 16 tabs.

  5. Comparative Analysis of Water Quality between the Runoff Entrance and Middle of Recycling Irrigation Reservoirs

    Directory of Open Access Journals (Sweden)

    Haibo Zhang

    2015-07-01

    Full Text Available Recycling irrigation reservoirs (RIRs are an emerging aquatic ecosystem of critical importance, for conserving and protecting increasingly scarce water resources. Here, we compare water quality between runoff entrance and middle of four RIRs in nurseries in Virginia (VA and Maryland (MD. Surface water temperature (T and oxidation-reduction potential (ORP were lower in the middle than at the entrance, while the trend was opposite for dissolved oxygen (DO, pH and chlorophyll a (Chla. The magnitude of these differences between the entrance and middle decreased with increasing depth. These differences were magnified by water stratification from April to October. Minimum differences were observed for electrical conductivity (EC, total dissolved solids (TDS and turbidity (TUR. Cluster analyses were performed on water quality difference data to evaluate whether the differences vary with respect to reservoirs. Two clusters were formed with one consisting primarily of VA reservoirs, and the other consisting mostly of MD reservoirs in both years. Water quality in the middle and at the entrance of RIRs was expected to vary greatly because of runoff inflow. The two-point water quality differences observed here, although statistically significant, are not large enough to cause significant impact on crop health and productivity for most water quality parameters except pH. Additional analysis of outlet data shows that the range and magnitude of water quality difference between the middle and the outlet are comparable to those between the middle and entrance of RIRs. These results indicate that monitoring at a single point is sufficient to obtain reliable water quality estimates for most water quality parameters in RIRs except pH. This is important when considering the cost of labor and equipment necessary for documenting water quality in agricultural production systems. However, additional pH measurements are still necessary to make practical water quality

  6. COMPARATIVE ANALYSIS OF STEEL AND ALUMINUM STRUCTURES

    Directory of Open Access Journals (Sweden)

    Josip Peko

    2016-12-01

    Full Text Available This study examined steel and aluminum variants of modern exhibition structures in which the main design requirements include low weight (increased span/depth ratio, transportation, and construction and durability (resistance to corrosion. This included a design situation in which the structural application of aluminum alloys provided an extremely convenient and practical solution. Viability of an aluminum structure depends on several factors and requires a detailed analysis. The overall conclusion of the study indicated that aluminum can be used as a structural material and as a viable alternative to steel for Croatian snow and wind load values and evidently in cases in which positive properties of aluminum are required for structural design. Furthermore, a structural fire analysis was conducted for an aluminum variant structure by using a zone model for realistic fire analysis. The results suggested that passive fire protection for the main structural members was not required in the event of areal fire with duration of 60 min.

  7. Advertisement Analysis: A Comparative Critical Study

    Directory of Open Access Journals (Sweden)

    Noureldin Mohamed Abdelaal

    2014-12-01

    Full Text Available This study aimed at analyzing two advertisements, and investigating how advertisers use discourse and semiotics to make people and customers buy into their ideas, beliefs, or simply their products. The two advertisements analyzed are beauty products which have been selected from internet magazines. The methodology adopted in this study is qualitative method. The first advertisement is analyzed qualitatively in terms of content; there was no focus on a specific theoretical frame work, while the second advertisement analysis is based on Fairclough’s framework, the critical discourse analysis framework.

  8. The organic analysis and carbon chemistry of lunar samples: Their significance for exobiology; Proceedings of the Conference, University of Maryland, College Park, Md., October 26-28, 1971.

    Science.gov (United States)

    1972-01-01

    Various methods used in the organic analysis of lunar samples are reviewed. The scope, advantages, and limitations of these methods are discussed, with particular emphasis on possible sources of contamination and experimental artifacts inherent in their use. A broad survey of the organogenic elements and compounds found in lunar samples covers the search for biogenic structures and viable organisms; the abundance and isotopic composition of various elements and compounds; the search for porphyrins, amino acids, or amino acid precursors; and the presence of heterocylics, aromatic hydrocarbons, and other organic compounds. The sources of the organogenic elements and compounds detected in lunar samples are discussed. The significance of the lunar organic analysis for exobiology is discussed in terms of its relevance to and implications for the studies of chemical evolution and terrestrial organic geochemistry. Individual items are announced in this issue.

  9. Comparative Distributions of Hazard Modeling Analysis

    Directory of Open Access Journals (Sweden)

    Rana Abdul Wajid

    2006-07-01

    Full Text Available In this paper we present the comparison among the distributions used in hazard analysis. Simulation technique has been used to study the behavior of hazard distribution modules. The fundamentals of Hazard issues are discussed using failure criteria. We present the flexibility of the hazard modeling distribution that approaches to different distributions.

  10. Comparative analysis of multiple target tracking methods

    Directory of Open Access Journals (Sweden)

    Michael Kamaraj Devadoss

    2016-07-01

    Full Text Available Many applications such as intelligent transportation, video surveillance, robotics of computer vision mainly depend on task of multiple object tracking. It includes the process of detection, classifications and tracking. The main focus of the study is to develop an efficient and effective multiple target tracking methods to solve the issues of illumination changes, occlusions and affinity matching. Accordingly, the various multiple target tracking methods are tested and evaluated using the metrics on publicly available datasets from which it is obvious that the outcome of the global energy minimization and optimization techniques is comparatively better than any other existing techniques in all aspects. This comparative study work will also help in better understanding of the problem, knowledge of the methods and experimental evaluation skill for further research works.

  11. Orthodoxy and reflexivity in international comparative analysis

    DEFF Research Database (Denmark)

    Lind, Jens; Valkenburg, Ben

    2002-01-01

    project, in which we have tried to deal with these consequences. Fourth, and hopefully as a result of the first three aims, we want to argue that a reflexive approach of international, comparative research is not only desirable, but attainable as well. In order to do so, we begin with a short discussion...... upon the consequences on the level of empirical research. We want to avoid that, so our second and third subject will be the practical implications of reflexivity for empirical research as well as for social policy. Our discussion on these subjects is based on the practical experiences in the INPART...... on the main issues in the so-called ?reflexive approach? and consider the main consequences of this approach for both social science and social policy. Against this background we will discuss the implications for comparative research and the experiences of the INPART project end up with a few central issues...

  12. Loss Given Default Modelling: Comparative Analysis

    OpenAIRE

    Yashkir, Olga; Yashkir, Yuriy

    2013-01-01

    In this study we investigated several most popular Loss Given Default (LGD) models (LSM, Tobit, Three-Tiered Tobit, Beta Regression, Inflated Beta Regression, Censored Gamma Regression) in order to compare their performance. We show that for a given input data set, the quality of the model calibration depends mainly on the proper choice (and availability) of explanatory variables (model factors), but not on the fitting model. Model factors were chosen based on the amplitude of their correlati...

  13. Improved Collision Attack on Hash Function MD5

    Institute of Scientific and Technical Information of China (English)

    Jie Liang; Xue-Jia Lai

    2007-01-01

    In this paper, we present a fast attack algorithm to find two-block collision of hash function MD5.The algorithm is based on the two-block collision differential path of MD5 that was presented by Wang et al.In the Conference EUROCRYPT 2005.We found that the derived conditions for the desired collision differential path were not sufficient to guarantee the path to hold and that some conditions could be modified to enlarge the collision set.By using technique of small range searching and omitting the computing steps to check the characteristics in the attack algorithm, we can speed up the attack of MD5 efficiently.Compared with the Advanced Message Modification technique presented by Wang et al.,the small range searching technique can correct 4 more conditions for the first iteration differential and 3 more conditions for the second iteration differential, thus improving the probability and the complexity to find collisions.The whole attack on the MD5 can be accomplished within 5 hours using a PC with Pentium4 1.70GHz CPU.

  14. Obituary of Philip H. Cooper, MD.

    Science.gov (United States)

    Patterson, James W; Wick, Mark R; Mills, Stacey E

    2015-08-01

    Dermatopathology lost a giant in the field with the death of Philip H. Cooper, MD, on Friday, January 30, 2015. The following obituary represents a celebration of his life and his contributions to our field.

  15. Comparative genomic analysis of soybean flowering genes.

    Directory of Open Access Journals (Sweden)

    Chol-Hee Jung

    Full Text Available Flowering is an important agronomic trait that determines crop yield. Soybean is a major oilseed legume crop used for human and animal feed. Legumes have unique vegetative and floral complexities. Our understanding of the molecular basis of flower initiation and development in legumes is limited. Here, we address this by using a computational approach to examine flowering regulatory genes in the soybean genome in comparison to the most studied model plant, Arabidopsis. For this comparison, a genome-wide analysis of orthologue groups was performed, followed by an in silico gene expression analysis of the identified soybean flowering genes. Phylogenetic analyses of the gene families highlighted the evolutionary relationships among these candidates. Our study identified key flowering genes in soybean and indicates that the vernalisation and the ambient-temperature pathways seem to be the most variant in soybean. A comparison of the orthologue groups containing flowering genes indicated that, on average, each Arabidopsis flowering gene has 2-3 orthologous copies in soybean. Our analysis highlighted that the CDF3, VRN1, SVP, AP3 and PIF3 genes are paralogue-rich genes in soybean. Furthermore, the genome mapping of the soybean flowering genes showed that these genes are scattered randomly across the genome. A paralogue comparison indicated that the soybean genes comprising the largest orthologue group are clustered in a 1.4 Mb region on chromosome 16 of soybean. Furthermore, a comparison with the undomesticated soybean (Glycine soja revealed that there are hundreds of SNPs that are associated with putative soybean flowering genes and that there are structural variants that may affect the genes of the light-signalling and ambient-temperature pathways in soybean. Our study provides a framework for the soybean flowering pathway and insights into the relationship and evolution of flowering genes between a short-day soybean and the long-day plant

  16. [Amaranth flour: characteristics, comparative analysis, application possibilities].

    Science.gov (United States)

    Zharkov, I M; Miroshnichenko, L A; Zviagin, A A; Bavykina, I A

    2014-01-01

    Amaranth flour--a product of amaranth seeds processing--is a valuable industrial raw material that has an unique chemical composition and may be used for nutrition of people suffering from intolerance to traditional cereals protein, including celiac disease patients. The research aim was to study the composition of amaranth flour of two types compared with semolina which is traditionally used for nutrition by Russian population, as well as to compare the composition of milk amaranth flour porridge with milk semolina porridge. The composition of amaranth whole-ground flour and amaranth flour of premium grade processed from amaranth seeds grown in Voronezh region has been researched. It is to be noted that protein content in amaranth flour was 10.8-24.3% higher than in semolina, and its biological value and NPU-coefficient were higher by 22.65 and 46.51% respectively; lysine score in amaranth flour protein of premium grade came up to 107.54%, and in semolina protein only 40.95%. The level of digestible carbohydrates, including starch, was lower in amaranth flour than in semolina by 2.79-12.85 and 4.76-15.85% respectively, while fiber content was 15.5-30 fold higher. Fat content in amaranth flour of premium grade was 2,4 fold lower than in whole-ground amaranth flour but it was 45% higher than in semolina. The main advantage of amaranth flour protein compared to wheat protein is the predominance of albumins and globulins and a minimal content of prolamines and alpha-gliadin complete absence. The specifics of chemical composition allow the amaranth flour to be recommended for being included into nutrition of both healthy children and adults and also celiac disease patients.

  17. Comparative Analysis of Multistage Interconnection Networks.

    Science.gov (United States)

    1987-12-01

    increasing-failure-rate (IFR) lifetime-distributions. II 4-- 57 65.6.1 Exact Reliability Analysis Let rsE (t) be the time-dependent reliability of the basic...elements in series. Hence, the reliability of an N x N SEN is given by RSEN(t) = [ rsE (t)12NL (5.4) For the 4 x 4 SEN, it is clear that the reliability...is RSEN(t) = [ rSE (t)] 4 (5.5) since there are four identical SEs. The 4 x 4 SEN+ has six SEs; two in each of three stages. The four SEs which comprise

  18. Comparative analysis of life insurance market

    Directory of Open Access Journals (Sweden)

    Malynych, Anna Mykolayivna

    2011-05-01

    Full Text Available The article deals with the comprehensive analysis of statistic insight into development of the world and regional life insurance markets on the basis of macroeconomic indicators. The author located domestic life insurance market on the global scale, analyzed its development and suggested the methods to calculate the marketing life insurance index. There was also approbated the mentioned methods on database of 77 countries all over the world. The author also defined the national rating on the basis of marketing life insurance index.

  19. Nigerian Criminal Networks; A comparative analysis.

    OpenAIRE

    Alkholt, Aimar

    2010-01-01

    Why is an African federation the home to one of the more dominating criminal networks operating globally? Nigeria is not well known for its high level of Internet-infrastructure. Still, it is in a class of its own when it comes to e-fraud or 419 spam mails. It is also prominent within the drug trade and the African-European trafficking network. By comparatively analysing other forms of Organized Crime against the Nigerian Brand, the thesis has tried to find the particulars of Nigerian Crimina...

  20. The Constant Comparative Method of Qualitative Analysis

    Directory of Open Access Journals (Sweden)

    Barney G. Glaser, Ph.D.

    2008-11-01

    Full Text Available Currently, the general approaches to the analysis of qualitative data are these:1. If the analyst wishes to convert qualitative data into crudely quantifiable form so that he can provisionally test a hypothesis, he codes the data first and then analyzes it. He makes an effort to code “all relevant data [that] can be brought to bear on a point,” and then systematically assembles, assesses and analyzes these data in a fashion that will “constitute proof for a given proposition.”i2. If the analyst wishes only to generate theoretical ideasnew categories and their properties, hypotheses and interrelated hypotheses- he cannot be confined to the practice of coding first and then analyzing the data since, in generating theory, he is constantly redesigning and reintegrating his theoretical notions as he reviews his material.ii Analysis with his purpose, but the explicit coding itself often seems an unnecessary, burdensome task. As a result, the analyst merely inspects his data for new properties of his theoretical categories, and writes memos on these properties.We wish to suggest a third approach

  1. New scoring functions for virtual screening from molecular dynamics simulations with a quantum-refined force-field (QRFF-MD). Application to cyclin-dependent kinase 2.

    Science.gov (United States)

    Ferrara, Ph; Curioni, A; Vangrevelinghe, E; Meyer, T; Mordasini, T; Andreoni, W; Acklin, P; Jacoby, E

    2006-01-01

    A recently introduced new methodology based on ultrashort (50-100 ps) molecular dynamics simulations with a quantum-refined force-field (QRFF-MD) is here evaluated in its ability both to predict protein-ligand binding affinities and to discriminate active compounds from inactive ones. Physically based scoring functions are derived from this approach, and their performance is compared to that of several standard knowledge-based scoring functions. About 40 inhibitors of cyclin-dependent kinase 2 (CDK2) representing a broad chemical diversity were considered. The QRFF-MD method achieves a correlation coefficient, R(2), of 0.55, which is significantly better than that obtained by a number of traditional approaches in virtual screening but only slightly better than that obtained by consensus scoring (R(2) = 0.50). Compounds from the Available Chemical Directory, along with the known active compounds, were docked into the ATP binding site of CDK2 using the program Glide, and the 650 ligands from the top scored poses were considered for a QRFF-MD analysis. Combined with structural information extracted from the simulations, the QRFF-MD methodology results in similar enrichment of known actives compared to consensus scoring. Moreover, a new scoring function is introduced that combines a QRFF-MD based scoring function with consensus scoring, which results in substantial improvement on the enrichment profile.

  2. Determination of Delta m(d) and absolute calibration of flavor taggers for the Delta m(s) analysis, in fully reconstructed decays at the CDF experiment

    Energy Technology Data Exchange (ETDEWEB)

    Gomez, Jonatan Piedra [University of Cantabria, (Spain). Inst. of Physics

    2005-04-21

    The new trigger processor, the Silicon Vertex Tracking (SVT), has dramatically improved the B physics capabilities of the upgraded CDF II Detector; for the first time in a hadron collider, the SVT has enabled the access to non-lepton-triggered B meson decays. Within the new available range of decay modes, the B$0\\atop{s}$ → D$-\\atop{s}$π+ signature is of paramount importance in the measurement of the Δms mixing frequency. The analysis reported here is a step towards the measurement of this frequency; two where our goals: carrying out the absolute calibration of the opposite side flavor taggers, used in the Δms measurement; and measuring the B$0\\atop{d}$ mixing frequency in a B → Dπ sample, establishing the feasibility of the mixing measurement in this sample whose decay-length is strongly biased by the selective SVT trigger. We analyze a total integrated luminosity of 355 pb-1 collected with the CDF II Detector. By triggering on muons, using the conventional di-muon trigger; or displaced tracks, using the SVT trigger, we gather a sample rich in bottom and charm mesons.

  3. Comparative analysis of some search engines

    Directory of Open Access Journals (Sweden)

    Taiwo O. Edosomwan

    2010-10-01

    Full Text Available We compared the information retrieval performances of some popular search engines (namely, Google, Yahoo, AlltheWeb, Gigablast, Zworks and AltaVista and Bing/MSN in response to a list of ten queries, varying in complexity. These queries were run on each search engine and the precision and response time of the retrieved results were recorded. The first ten documents on each retrieval output were evaluated as being ‘relevant’ or ‘non-relevant’ for evaluation of the search engine’s precision. To evaluate response time, normalised recall ratios were calculated at various cut-off points for each query and search engine. This study shows that Google appears to be the best search engine in terms of both average precision (70% and average response time (2 s. Gigablast and AlltheWeb performed the worst overall in this study.

  4. Nonlinear analysis of RED - a comparative study

    Energy Technology Data Exchange (ETDEWEB)

    Jiang Kai; Wang Xiaofan E-mail: xfwang@sjtu.edu.cn; Xi Yugeng

    2004-09-01

    Random Early Detection (RED) is an active queue management (AQM) mechanism for routers on the Internet. In this paper, performance of RED and Adaptive RED are compared from the viewpoint of nonlinear dynamics. In particular, we reveal the relationship between the performance of the network and its nonlinear dynamical behavior. We measure the maximal Lyapunov exponent and Hurst parameter of the average queue length of RED and Adaptive RED, as well as the throughput and packet loss rate of the aggregate traffic on the bottleneck link. Our simulation scenarios include FTP flows and Web flows, one-way and two-way traffic. In most situations, Adaptive RED has smaller maximal Lyapunov exponents, lower Hurst parameters, higher throughput and lower packet loss rate than that of RED. This confirms that Adaptive RED has better performance than RED.

  5. Comparative analysis of Goodwin's business cycle models

    Science.gov (United States)

    Antonova, A. O.; Reznik, S.; Todorov, M. D.

    2016-10-01

    We compare the behavior of solutions of Goodwin's business cycle equation in the form of neutral delay differential equation with fixed delay (NDDE model) and in the form of the differential equations of 3rd, 4th and 5th orders (ODE model's). Such ODE model's (Taylor series expansion of NDDE in powers of θ) are proposed in N. Dharmaraj and K. Vela Velupillai [6] for investigation of the short periodic sawthooth oscillations in NDDE. We show that the ODE's of 3rd, 4th and 5th order may approximate the asymptotic behavior of only main Goodwin's mode, but not the sawthooth modes. If the order of the Taylor series expansion exceeds 5, then the approximate ODE becomes unstable independently of time lag θ.

  6. Comparative analysis of cystatin superfamily in platyhelminths.

    Directory of Open Access Journals (Sweden)

    Aijiang Guo

    Full Text Available The cystatin superfamily is comprised of cysteine proteinase inhibitors and encompasses at least 3 subfamilies: stefins, cystatins and kininogens. In this study, the platyhelminth cystatin superfamily was identified and grouped into stefin and cystatin subfamilies. The conserved domain of stefins (G, QxVxG was observed in all members of platyhelminth stefins. The three characteristics of cystatins, the cystatin-like domain (G, QxVxG, PW, a signal peptide, and one or two conserved disulfide bonds, were observed in platyhelminths, with the exception of cestodes, which lacked the conserved disulfide bond. However, it is noteworthy that cestode cystatins had two tandem repeated domains, although the second tandem repeated domain did not contain a cystatin-like domain, which has not been previously reported. Tertiary structure analysis of Taenia solium cystatin, one of the cestode cystatins, demonstrated that the N-terminus of T. solium cystatin formed a five turn α-helix, a five stranded β-pleated sheet and a hydrophobic edge, similar to the structure of chicken cystatin. Although no conserved disulfide bond was found in T. solium cystatin, the models of T. solium cystatin and chicken cystatin corresponded at the site of the first disulfide bridge of the chicken cystatin. However, the two models were not similar regarding the location of the second disulfide bridge of chicken cystatin. These results showed that T. solium cystatin and chicken cystatin had similarities and differences, suggesting that the biochemistry of T. solium cystatin could be similar to chicken cystatin in its inhibitory function and that it may have further functional roles. The same results were obtained for other cestode cystatins. Phylogenetic analysis showed that cestode cystatins constituted an independent clade and implied that cestode cystatins should be considered to have formed a new clade during evolution.

  7. Comparative analysis of cystatin superfamily in platyhelminths.

    Science.gov (United States)

    Guo, Aijiang

    2015-01-01

    The cystatin superfamily is comprised of cysteine proteinase inhibitors and encompasses at least 3 subfamilies: stefins, cystatins and kininogens. In this study, the platyhelminth cystatin superfamily was identified and grouped into stefin and cystatin subfamilies. The conserved domain of stefins (G, QxVxG) was observed in all members of platyhelminth stefins. The three characteristics of cystatins, the cystatin-like domain (G, QxVxG, PW), a signal peptide, and one or two conserved disulfide bonds, were observed in platyhelminths, with the exception of cestodes, which lacked the conserved disulfide bond. However, it is noteworthy that cestode cystatins had two tandem repeated domains, although the second tandem repeated domain did not contain a cystatin-like domain, which has not been previously reported. Tertiary structure analysis of Taenia solium cystatin, one of the cestode cystatins, demonstrated that the N-terminus of T. solium cystatin formed a five turn α-helix, a five stranded β-pleated sheet and a hydrophobic edge, similar to the structure of chicken cystatin. Although no conserved disulfide bond was found in T. solium cystatin, the models of T. solium cystatin and chicken cystatin corresponded at the site of the first disulfide bridge of the chicken cystatin. However, the two models were not similar regarding the location of the second disulfide bridge of chicken cystatin. These results showed that T. solium cystatin and chicken cystatin had similarities and differences, suggesting that the biochemistry of T. solium cystatin could be similar to chicken cystatin in its inhibitory function and that it may have further functional roles. The same results were obtained for other cestode cystatins. Phylogenetic analysis showed that cestode cystatins constituted an independent clade and implied that cestode cystatins should be considered to have formed a new clade during evolution.

  8. Comparative promoter region analysis powered by CORG

    Directory of Open Access Journals (Sweden)

    Arndt Peter F

    2005-02-01

    Full Text Available Abstract Background Promoters are key players in gene regulation. They receive signals from various sources (e.g. cell surface receptors and control the level of transcription initiation, which largely determines gene expression. In vertebrates, transcription start sites and surrounding regulatory elements are often poorly defined. To support promoter analysis, we present CORG http://corg.molgen.mpg.de, a framework for studying upstream regions including untranslated exons (5' UTR. Description The automated annotation of promoter regions integrates information of two kinds. First, statistically significant cross-species conservation within upstream regions of orthologous genes is detected. Pairwise as well as multiple sequence comparisons are computed. Second, binding site descriptions (position-weight matrices are employed to predict conserved regulatory elements with a novel approach. Assembled EST sequences and verified transcription start sites are incorporated to distinguish exonic from other sequences. As of now, we have included 5 species in our analysis pipeline (man, mouse, rat, fugu and zebrafish. We characterized promoter regions of 16,127 groups of orthologous genes. All data are presented in an intuitive way via our web site. Users are free to export data for single genes or access larger data sets via our DAS server http://tomcat.molgen.mpg.de:8080/das. The benefits of our framework are exemplarily shown in the context of phylogenetic profiling of transcription factor binding sites and detection of microRNAs close to transcription start sites of our gene set. Conclusion The CORG platform is a versatile tool to support analyses of gene regulation in vertebrate promoter regions. Applications for CORG cover a broad range from studying evolution of DNA binding sites and promoter constitution to the discovery of new regulatory sequence elements (e.g. microRNAs and binding sites.

  9. Comparative analysis of Debrecen sunspot catalogues

    Science.gov (United States)

    Győri, L.; Ludmány, A.; Baranyi, T.

    2017-02-01

    Sunspot area data are important for studying solar activity and its long-term variations. At the Debrecen Heliophysical Observatory, we compiled three sunspot catalogues: the Debrecen Photoheliographic Data (DPD), the SDO/HMI Debrecen Data (HMIDD) and the SOHO/MDI Debrecen Data. For comparison, we also compiled an additional sunspot catalogue, the Greenwich Photoheliographic Data, from the digitized Royal Greenwich Observatory images for 1974-76. By comparing these catalogues when they overlap in time, we can investigate how various factors influence the measured area of sunspots, and, in addition, we can derive area cross-calibration factors for these catalogues. The main findings are as follows. Poorer seeing increases the individual corrected spot areas and decreases the number of small spots. Interestingly, the net result of these two effects for the total corrected spot area is zero. DPD daily total corrected sunspot areas are 5 per cent smaller than the HMIDD ones. Revised DPD daily total corrected umbra areas are 9 per cent smaller than those of HMIDD. The Greenwich photoheliographic areas are only a few per cent smaller than DPD areas. A 0.2° difference between the north directions of the DPD and MDI images is found. This value is nearly the same as was found (0.22°) by us in a previous paper comparing HMI and MDI images. The area measurement practice (spots smaller than 10 mh were not directly measured but an area of 2 mh was assigned to each) of the Solar Observing Optical Network cannot explain the large area deficit of the Solar Observing Optical Network.

  10. Comparative proteomics analysis of human gastric cancer

    Institute of Scientific and Technical Information of China (English)

    Wei Li; Jian-Fang Li; Ying Qu; Xue-Hua Chen; Jian-Min Qin; Qin-Long Gu; Min Yan; Zheng-Gang Zhu; Bing-Ya Liu

    2008-01-01

    AIM: To isolate and identify differentially expressed proteins between cancer and normal tissues of gastric cancer by two-dimensional electrophoresis (2-DE) and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS).METHODS: Soluble fraction proteins of gastric cancer tissues and paired normal tissues were separated by 2-DE.The differentially expressed proteins were selected and identified by MALDI-TOF-MS and database search.RESULTS: 2-DE profiles with high resolution and reproducibility were obtained.Twenty-three protein spots were excised from sliver staining gel and digested in gel by trypsin,in which fifteen protein spots were identified successfully.Among the identified proteins,there were ten over-expressed and five under-expressed proteins in stomach cancer tissues compared with normal tissues.CONCLUSION: In this study,the well-resolved,reproducible 2-DE patterns of human gastric cancer tissue and paired normal tissue were established and optimized and certain differentially-expressed proteins were identified.The combined use of 2-DE and MS provides an effective approach to screen for potential tumor markers.

  11. LINGUISTIC AND POLITICAL ANALYSIS: COMPARATIVE ASPECTS

    Directory of Open Access Journals (Sweden)

    V. M. Alpatov

    2012-01-01

    Full Text Available Abstract: The article analyses the book on political systems and processes in the East prepared by MGIMO-University authors and edited by Alexei D. Voskressenski in order to show the differences in approach and methods used in linguistics and political science. The author shows two significant differences in present-day stressing that linguistics of the XIX century was closer to the present-day political science? As he believes. The first difference includes monism of political science approach, since the book reveals monistic scale from totalitarianism to democracy, while linguistic has abandoned the monistic view on typology. The second difference is the value-addedness of the political science approach. The value-free norm in linguistics presupposes setting up of a single standard for all speakers in order to reach full mutual understanding. In political science subjective criteria are decisive for evaluation. The article gives examples from the book to prove that political science, compared to linguistics, is not aimed at overcoming contradictions, distinguishing between the terms, avoiding unproved statements and subjective evaluations.

  12. Comparative Analysis of Frames with Varying Inertia

    Directory of Open Access Journals (Sweden)

    Prerana Nampalli

    2015-01-01

    Full Text Available This paper presents an elastic seismic response of reinforced concrete frames with 3 variations of heights, i.e. (G+2, (G+4, (G+6 storey models are compared for bare frame and frame with brick infill structures which have been analyzed for gravity as well as seismic forces and their response is studied as the geometric parameters varying from view point of predicting behavior of similar structures subjected to similar loads or load combinations. In this study, two different cases are selected i.e. frames with prismatic members and frames with non-prismatic members. The structural response of various members when geometry changes physically, as in case of linear and parabolic haunches provided beyond the face of columns at beam column joints or step variations as in case of stepped haunches was also studied. Frames have been analyzed statically as well as dynamically using ETABS-9.7.4 software referring IS: 456-2000, IS: 1893 (Part-12002 and the results so obtained are grouped into various categories

  13. Comparative analysis of laparoscopic low rectal resections

    Directory of Open Access Journals (Sweden)

    I. L. Chernikovsky

    2015-01-01

    to 9.3 versus 6.2 in Group1. ULAR required consumables costing an average of 45 000 rubles more than did ISR. Conclusion. Both surgical procedures are comparable in the duration of a surgical intervention, the volume of intraoperative blood loss, and the quality of TME. ULAR with a reservoir is functionally more preferential.  

  14. H5MD: a structured, efficient, and portable file format for molecular data

    CERN Document Server

    de Buyl, Pierre; Höfling, Felix

    2013-01-01

    We propose a new open file format named "H5MD" for storing molecular simulation data such as trajectories of particle positions and velocities as well as thermodynamic observables that are tracked during the course of the simulation. H5MD files are HDF5 (Hierarchical Data Format) files with a specific hierarchy and naming scheme. Thus, H5MD inherits many benefits of HDF5, e.g., structured layout of multi-dimensional data sets, data compression, fast and parallel I/O, and portability across many programming languages and hardware platforms. H5MD files are self-contained, and foster the reproducibility of scientific data and the interchange of data between researchers using different simulation programs and analysis software. In addition, the H5MD specification can serve for other kinds of data (e.g. experimental data) and is extensible to supplemental data without breaking the compliance of the file to the specification.

  15. MD 349: Impedance Localization with AC-dipole

    CERN Document Server

    Biancacci, Nicolo; Metral, Elias; Salvant, Benoit; Papotti, Giulia; Persson, Tobias Hakan Bjorn; Tomas Garcia, Rogelio; CERN. Geneva. ATS Department

    2016-01-01

    The purpose of this MD is to measure the distribution of the transverse impedance of the LHC by observing the phase advance variation with intensity between the machine BPMs. Four injected bunches with different intensities are excited with an AC dipole and the turn by turn data is acquired from the BPM system. Through post-processing analysis the phase variation along the machine is depicted and, from this information, first conclusions of the impedance distribution can be drawn.

  16. Towards automatic coupling corrections with DOROS BPMs (MD750)

    CERN Document Server

    Persson, Tobias Hakan Bjorn; Langner, Andy Sven; Lefevre, Thibaut; Maclean, Ewen Hamish; Malina, Lukas; Olexa, Jakub; Skowronski, Piotr Krzysztof; Garcia-Tabares Valdivieso, Ana; Coello De Portugal - Martinez Vazquez, Jaime Maria; Tomas Garcia, Rogelio; CERN. Geneva. ATS Department

    2015-01-01

    BPMs close to IP1 and IP5 have been equipped with the new DOROS (Diode ORbit OScillation) system which provides precise orbit and turn-by-turn data [1]. In this MD-note we report on the rst measurements with the DOROS system to measure the transverse coupling. Furthermore, we compare the results and the performance of the system to the normal BPMs.

  17. Overland Coastal Analysis for Somerset Co. MD

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — Coastal study data as defined in FEMA Guidelines and Specifications Appendix D: Guidance for Coastal Flooding Analyses and Mapping, submitted as a result of a...

  18. A comparative analysis of strategic marketing planning adoption in ...

    African Journals Online (AJOL)

    A comparative analysis of strategic marketing planning adoption in Nigerian ... approaches to strategic marketing planning were examined using ANOVA. ... industry,organisational performance, marketing mix, top management commitment.

  19. New Message Differences for Collision Attacks on MD4 and MD5

    Science.gov (United States)

    Sasaki, Yu; Wang, Lei; Kunihiro, Noboru; Ohta, Kazuo

    In 2005, collision resistance of several hash functions was broken by Wang et al. The strategy of determining message differences is the most important part of collision attacks against hash functions. So far, many researchers have tried to analyze Wang et al.'s method and proposed improved collision attacks. Although several researches proposed improved attacks, all improved results so far were based on the same message differences proposed by Wang et al. In this paper, we propose new message differences for collision attacks on MD4 and MD5. Our message differences of MD4 can generate a collision with complexity of less than two MD4 computations, which is faster than the original Wang et al.'s attack, and moreover, than the all previous attacks. This is the first result that improves the complexity of collision attack by using different message differences from Wang et al.'s. Regarding MD5, so far, no other message difference from Wang et al.'s is known. Therefore, study for constructing method of other message differences on MD5 should be interesting. Our message differences of MD5 generates a collision with complexity of 242 MD5 computations, which is slower than the latest best attack. However, since our attack needs only 1 bit difference, it has some advantages in terms of message freedom of collision messages.

  20. SU-E-T-529: Is MFO-IMPT Robust Enough for the Treatment of Head and Neck Tumors? A 2-Year Outcome Analysis Following Proton Therapy On the First 50 Oropharynx Patients at the MD Anderson Cancer Center

    Energy Technology Data Exchange (ETDEWEB)

    Frank, S; Garden, A; Anderson, M; Rosenthal, D; Morrison, W; Gunn, B; Fuller, C; Phan, J; Zhang, X; Poenisch, F; Wu, R; Li, H; Gautam, A; Sahoo, N; Gillin, M; Zhu, X [MD Anderson Cancer Ctr., Houston, TX (United States)

    2015-06-15

    Purpose: Multi-field optimization intensity modulated proton therapy (MFO-IMPT) for oropharyngeal tumors has been established using robust planning, robust analysis, and robust optimization techniques. While there are inherent uncertainties in proton therapy treatment planning and delivery, outcome reporting are important to validate the proton treatment process. The purpose of this study is to report the first 50 oropharyngeal tumor patients treated de-novo at a single institution with MFO-IMPT. Methods: The data from the first 50 patients with squamous cell carcinoma of the oropharynx treated at MD Anderson Cancer Center from January 2011 to December 2014 on a prospective IRB approved protocol were analyzed. Outcomes were analyzed to include local, regional, and distant treatment failures. Acute and late toxicities were analyzed by CTCAE v4.0. Results: All patients were treated with definitive intent. The median follow-up time of the 50 patients was 25 months. Patients by gender were male (84%) and female (16%). The average age was 61 years. 50% of patients were never smokers and 4% were current smokers. Presentation by stage; I–1, II–0, III– 9, IVA–37 (74%), IVB–3. 88% of patients were HPV/p16+. Patients were treated to 66–70 CGE. One local failure was reported at 13 months following treatment. One neck failure was reported at 12 months. 94% of patients were alive with no evidence of disease. One patient died without evidence of disease. There were no Grade 4 or Grade 5 toxicities. Conclusion: MFO-IMPT for oropharyngeal tumors is robust and provides excellent outcomes 2 years after treatment. A randomized trial is underway to determine if proton therapy will reduce chronic late toxicities of IMRT.

  1. Angiotensin II induces kidney inflammatory injury and fibrosis through binding to myeloid differentiation protein-2 (MD2)

    Science.gov (United States)

    Xu, Zheng; Li, Weixin; Han, Jibo; Zou, Chunpeng; Huang, Weijian; Yu, Weihui; Shan, Xiaoou; Lum, Hazel; Li, Xiaokun; Liang, Guang

    2017-01-01

    Growing evidence indicates that angiotensin II (Ang II), a potent biologically active product of RAS, is a key regulator of renal inflammation and fibrosis. In this study, we tested the hypothesis that Ang II induces renal inflammatory injury and fibrosis through interaction with myeloid differentiation protein-2 (MD2), the accessory protein of toll-like receptor 4 (TLR4) of the immune system. Results indicated that in MD2−/− mice, the Ang II-induced renal fibrosis, inflammation and kidney dysfunction were significantly reduced compared to control Ang II-infused wild-type mice. Similarly, in the presence of small molecule MD2 specific inhibitor L6H21 or siRNA-MD2, the Ang II-induced increases of pro-fibrotic and pro-inflammatory molecules were prevented in tubular NRK-52E cells. MD2 blockade also inhibited activation of NF-κB and ERK. Moreover, MD2 blockade prevented the Ang II-stimulated formation of the MD2/TLR4/MyD88 signaling complex, as well as the increased surface binding of Ang II in NRK-52E cells. In addition, Ang II directly bound recombinant MD2 protein, rather than TLR4 protein. We conclude that MD2 is a significant contributor in the Ang II-induced kidney inflammatory injury in chronic renal diseases. Furthermore, MD2 inhibition could be a new and important therapeutic strategy for preventing progression of chronic renal diseases.

  2. Fatigue In A Bravery Culture A Comparative Analysis

    Science.gov (United States)

    2016-12-01

    present paper’s comparative analysis , achieving mastery or near-mastery over a non- intelligent adversary, as in the science of manned flight or...VALLEY INTELLIGENCE CENTER The DVIC advertised itself as a “24/7 all-hazard, all-crime, information and intelligence collection, analysis , and...BRAVERY CULTURE— A COMPARATIVE ANALYSIS by John Anthony Romero December 2016 Thesis Advisor: Lauren F. Wollman Second Reader: Mark Perez

  3. 76 FR 77579 - Maryland Disaster #MD-00017

    Science.gov (United States)

    2011-12-13

    ... From the Federal Register Online via the Government Publishing Office SMALL BUSINESS ADMINISTRATION Maryland Disaster MD-00017 AGENCY: U.S. Small Business Administration. ACTION: Notice. SUMMARY... INFORMATION CONTACT: A. Escobar, Office of Disaster Assistance, U.S. Small Business Administration, 409...

  4. 78 FR 2707 - Maryland Disaster # MD-00026

    Science.gov (United States)

    2013-01-14

    ... From the Federal Register Online via the Government Publishing Office SMALL BUSINESS ADMINISTRATION Maryland Disaster MD-00026 AGENCY: U.S. Small Business Administration. ACTION: Notice. SUMMARY... INFORMATION CONTACT: A. Escobar, Office of Disaster Assistance, U.S. Small Business Administration, 409...

  5. Measuring populism: comparing two methods of content analysis

    NARCIS (Netherlands)

    Rooduijn, M.; Pauwels, T.

    2011-01-01

    The measurement of populism - particularly over time and space - has received only scarce attention. In this research note two different ways to measure populism are compared: a classical content analysis and a computer-based content analysis. An analysis of political parties in the United Kingdom,

  6. COMPARATIVE ANALYSIS BETWEEN THE FUNDAMENTAL AND TECHNICAL ANALYSIS OF STOCKS

    Directory of Open Access Journals (Sweden)

    Nada Petrusheva

    2016-04-01

    Full Text Available In the world of investing and trading, in order to have a definite advantage and constantly create profit, you need to have a strategic approach. Generally speaking, the two main schools of thought and strategies in financial markets are fundamental and technical analysis. Fundamental and technical analysis differ in several aspects, such as the way of functioning and execution, the time horizon used, the tools used and their objective. These differences lead to certain advantages and disadvantages of each of the analyses. Fundamental and technical analysis are also a subject of critical reviews by the academic and scientific community and many of these reviews concern the methods of their application, i.e. the possibility of combining the two analyses and using them complementarily to fully utilize their strengths and advantages.

  7. Apple F-box Protein MdMAX2 Regulates Plant Photomorphogenesis and Stress Response

    Directory of Open Access Journals (Sweden)

    Jian-Ping An

    2016-11-01

    Full Text Available MAX2 (MORE AXILLARY GROWTH2 is involved in diverse physiological processes, including photomorphogenesis, the abiotic stress response, as well as karrikin and strigolactone signaling-mediated shoot branching. In this study, MdMAX2, an F-box protein that is a homolog of Arabidopsis MAX2, was identified and characterized. Overexpression of MdMAX2 in apple calli enhanced the accumulation of anthocyanin. Ectopic expression of MdMAX2 in Arabidopsis exhibited photomorphogenesis phenotypes, including increased anthocyanin content and decreased hypocotyl length. Further study indicated that MdMAX2 might promote plant photomorphogenesis by affecting the auxin signaling as well as other plant hormones. Transcripts of MdMAX2 were noticeably up-regulated in response to NaCl and Mannitol treatments. Moreover, compared with the wild type, the MdMAX2-overexpressing apple calli and Arabidopsis exhibited increased tolerance to salt and drought stresses. Taken together, these results suggest that MdMAX2 plays a positive regulatory role in plant photomorphogenesis and stress response.

  8. Collision Attack on the Full Extended MD4 and Pseudo-Preimage Attack on RIPEMD

    Institute of Scientific and Technical Information of China (English)

    Gao-Li Wang

    2013-01-01

    The cryptographic hash functions Extended MD4 and RIPEMD are double-branch hash functions,which consist of two parallel branches.Extended MD4 was proposed by Rivest in 1990,and RIPEMD was devised in the framework of the RIPE project (RACE Integrity Primitives Evaluation,1988~1992).On the basis of differential analysis and meet-in-the-middle attack principle,this paper proposes a collision attack on the full Extended MD4 and a pseudo-preimage attack on the full RIPEMD respectively.The collision attack on Extended MD4 holds with a complexity of 237,and a collision instance is presented.The pseudo-preimage attack on RIPEMD holds with a complexity of 2125,4,which optimizes the complexity order for brute-force attack.The results in this study will also be beneficial to the analysis of other double-branch hash functions such as RIPEMD-160.

  9. Comparative analysis of wholesale and retail frozen fish marketing ...

    African Journals Online (AJOL)

    Comparative analysis of wholesale and retail frozen fish marketing in Port ... the effects of the marketer's socioeconomic variables on the volume of sales. ... policies that would enhance frozen fish marketers' access to loans in order to increase ...

  10. A comparative analysis of the sociolinguistic profiles of English in ...

    African Journals Online (AJOL)

    A comparative analysis of the sociolinguistic profiles of English in Kenya and Uganda. ... Journal of Language, Technology & Entrepreneurship in Africa. Journal Home · ABOUT ... [1] East Tennessee State University. [2] University of Eastern ...

  11. a comparative analysis of the rebound hammer and ultrasonic pulse ...

    African Journals Online (AJOL)

    2012-03-01

    Mar 1, 2012 ... A COMPARATIVE ANALYSIS OF THE REBOUND HAMMER ... Abstract. This work presents a study on the comparison between some non-destructive testing tech- .... require separate calibration or correlation charts. [12].

  12. Comparative analysis of rubber seed methyl ester with other methyl ...

    African Journals Online (AJOL)

    Comparative analysis of rubber seed methyl ester with other methyl esters. ... In order to achieve a two-step transesterification process was developed to convert rubber seed oil to its methyl esters. The first step, acid catalyzed ... Article Metrics.

  13. Comparative analysis of direct and indirect property investment ...

    African Journals Online (AJOL)

    Comparative analysis of direct and indirect property investment returns in Abuja. ... The study utilized mean score, variance, standard deviation, coefficient of ... is more risky than commercial property due to the risk variation of 0.15605 that ...

  14. Bluetooth security attacks comparative analysis, attacks, and countermeasures

    CERN Document Server

    Haataja, Keijo; Pasanen, Sanna; Toivanen, Pekka

    2013-01-01

    This overview of Bluetooth security examines network vulnerabilities and offers a comparative analysis of recent security attacks. It also examines related countermeasures and proposes a novel attack that works against all existing Bluetooth versions.

  15. A comparative analysis of returns of various financial asset classes ...

    African Journals Online (AJOL)

    A comparative analysis of returns of various financial asset classes in South Africa: a triumph of bonds? ... Southern African Business Review. Journal Home · ABOUT · Advanced ... This study does not take tax into consideration. After adjusting ...

  16. Kinetics of CH4 and CO2 hydrate dissociation and gas bubble evolution via MD simulation.

    Science.gov (United States)

    Uddin, M; Coombe, D

    2014-03-20

    Molecular dynamics simulations of gas hydrate dissociation comparing the behavior of CH4 and CO2 hydrates are presented. These simulations were based on a structurally correct theoretical gas hydrate crystal, coexisting with water. The MD system was first initialized and stabilized via a thorough energy minimization, constant volume-temperature ensemble and constant volume-energy ensemble simulations before proceeding to constant pressure-temperature simulations for targeted dissociation pressure and temperature responses. Gas bubble evolution mechanisms are demonstrated as well as key investigative properties such as system volume, density, energy, mean square displacements of the guest molecules, radial distribution functions, H2O order parameter, and statistics of hydrogen bonds. These simulations have established the essential similarities between CH4 and CO2 hydrate dissociation. The limiting behaviors at lower temperature (no dissociation) and higher temperature (complete melting and formation of a gas bubble) have been illustrated for both hydrates. Due to the shift in the known hydrate stability curves between guest molecules caused by the choice of water model as noted by other authors, the intermediate behavior (e.g., 260 K) showed distinct differences however. Also, because of the more hydrogen-bonding capability of CO2 in water, as reflected in its molecular parameters, higher solubility of dissociated CO2 in water was observed with a consequence of a smaller size of gas bubble formation. Additionally, a novel method for analyzing hydrate dissociation based on H-bond breakage has been proposed and used to quantify the dissociation behaviors of both CH4 and CO2 hydrates. Activation energies Ea values from our MD studies were obtained and evaluated against several other published laboratory and MD values. Intrinsic rate constants were estimated and upscaled. A kinetic reaction model consistent with macroscale fitted kinetic models has been proposed to

  17. Batch By Batch Longitudinal Emittance Blowup MD

    CERN Document Server

    Mastoridis, T; Butterworth, A; Jaussi, M; Molendijk, J

    2012-01-01

    The transverse bunch emittance increases significantly at 450 GeV from the time of injection till the ramp due to IBS. By selectively blowing up the longitudinal emittance of the incoming batch at each injection, it should be possible to reduce the transverse emittance growth rates due to IBS. An MD was conducted on April 22nd 2012 to test the feasibility and performance of the batch-by-batch longitudinal emittance blowup. There were three main goals during the MD. First, to test the developed hardware, firmware, and software for the batch-by-batch blowup. Then, to measure the transverse emittance growth rates of blown-up and "witness" batches to quantify any improvement, and finally to test the ALLInjectSequencer class, which deals with the complicated gymnastics of introducing or masking the new batch to various RF loops.

  18. MD on UFOs at MKIs and MKQs

    CERN Document Server

    Baer, T; Bartmann, W; Bracco, C; Carlier, E; Dehning, B; Garrel, N; Goddard, B; Jackson, S; Jimenez, M; Kain, V; Mertens, V; Misiowiec, M; Nordt, A; Papotti, G; Uythoven, J; Wenninger, J; Zerlauth, M; Zamantzas, C; Zimmermann, F

    2012-01-01

    UFOs ("Unidentified Falling Objects") are expected to be one of the major known performance limitation of the LHC. In this MD, the production mechanism and the dynamics of UFOs at the injection kicker magnets (MKIs) and the tune kicker magnets (MKQs) were studied. This was done by pulsing the MKIs and MKQs on a gap in the partly filled machine. During the MD, in total 58 UFO-type beam loss patterns were observed directly after pulsing the MKIs. None were observed after pulsing the MKQs, which provides important input for possible mitigation strategies. The temporal and spatial distribution of the UFO events could be determined by using a dedicated BLM Study Buffer, the implications for the UFO dynamics are discussed.

  19. MD5的Keygenme分析

    Institute of Scientific and Technical Information of China (English)

    Firebig

    2006-01-01

    闲来无事,抓出个不知何时下的Keygenme练练手,分析后可知.这个Keygenme有2张数据表,由注册名经MD5运算后进行查表,得出2个DWORD数据.然后再由注册码经过一个可逆循环得出2个DWORD数据.最后对比是否正确。(MD5的具体介绍黑防6期有说明)

  20. A comparative acoustic analysis of purring in four cats

    OpenAIRE

    Schötz, Susanne; Eklund, Robert

    2011-01-01

    This paper reports results from a comparative analysis of purring in four domesticcats. An acoustic analysis describes sound pressure level, duration, number ofcycles and fundamental frequency for egressive and ingressive phases. Significantindividual differences are found between the four cats in several respects.

  1. The Constant Comparative Analysis Method Outside of Grounded Theory

    Science.gov (United States)

    Fram, Sheila M.

    2013-01-01

    This commentary addresses the gap in the literature regarding discussion of the legitimate use of Constant Comparative Analysis Method (CCA) outside of Grounded Theory. The purpose is to show the strength of using CCA to maintain the emic perspective and how theoretical frameworks can maintain the etic perspective throughout the analysis. My…

  2. Humanized TLR4/MD-2 mice reveal LPS recognition differentially impacts susceptibility to Yersinia pestis and Salmonella enterica.

    Science.gov (United States)

    Hajjar, Adeline M; Ernst, Robert K; Fortuno, Edgardo S; Brasfield, Alicia S; Yam, Cathy S; Newlon, Lindsay A; Kollmann, Tobias R; Miller, Samuel I; Wilson, Christopher B

    2012-01-01

    Although lipopolysaccharide (LPS) stimulation through the Toll-like receptor (TLR)-4/MD-2 receptor complex activates host defense against Gram-negative bacterial pathogens, how species-specific differences in LPS recognition impact host defense remains undefined. Herein, we establish how temperature dependent shifts in the lipid A of Yersinia pestis LPS that differentially impact recognition by mouse versus human TLR4/MD-2 dictate infection susceptibility. When grown at 37°C, Y. pestis LPS is hypo-acylated and less stimulatory to human compared with murine TLR4/MD-2. By contrast, when grown at reduced temperatures, Y. pestis LPS is more acylated, and stimulates cells equally via human and mouse TLR4/MD-2. To investigate how these temperature dependent shifts in LPS impact infection susceptibility, transgenic mice expressing human rather than mouse TLR4/MD-2 were generated. We found the increased susceptibility to Y. pestis for "humanized" TLR4/MD-2 mice directly paralleled blunted inflammatory cytokine production in response to stimulation with purified LPS. By contrast, for other Gram-negative pathogens with highly acylated lipid A including Salmonella enterica or Escherichia coli, infection susceptibility and the response after stimulation with LPS were indistinguishable between mice expressing human or mouse TLR4/MD-2. Thus, Y. pestis exploits temperature-dependent shifts in LPS acylation to selectively evade recognition by human TLR4/MD-2 uncovered with "humanized" TLR4/MD-2 transgenic mice.

  3. Humanized TLR4/MD-2 mice reveal LPS recognition differentially impacts susceptibility to Yersinia pestis and Salmonella enterica.

    Directory of Open Access Journals (Sweden)

    Adeline M Hajjar

    Full Text Available Although lipopolysaccharide (LPS stimulation through the Toll-like receptor (TLR-4/MD-2 receptor complex activates host defense against Gram-negative bacterial pathogens, how species-specific differences in LPS recognition impact host defense remains undefined. Herein, we establish how temperature dependent shifts in the lipid A of Yersinia pestis LPS that differentially impact recognition by mouse versus human TLR4/MD-2 dictate infection susceptibility. When grown at 37°C, Y. pestis LPS is hypo-acylated and less stimulatory to human compared with murine TLR4/MD-2. By contrast, when grown at reduced temperatures, Y. pestis LPS is more acylated, and stimulates cells equally via human and mouse TLR4/MD-2. To investigate how these temperature dependent shifts in LPS impact infection susceptibility, transgenic mice expressing human rather than mouse TLR4/MD-2 were generated. We found the increased susceptibility to Y. pestis for "humanized" TLR4/MD-2 mice directly paralleled blunted inflammatory cytokine production in response to stimulation with purified LPS. By contrast, for other Gram-negative pathogens with highly acylated lipid A including Salmonella enterica or Escherichia coli, infection susceptibility and the response after stimulation with LPS were indistinguishable between mice expressing human or mouse TLR4/MD-2. Thus, Y. pestis exploits temperature-dependent shifts in LPS acylation to selectively evade recognition by human TLR4/MD-2 uncovered with "humanized" TLR4/MD-2 transgenic mice.

  4. The AINTEGUMENTA genes, MdANT1 and MdANT2, are associated with the regulation of cell production during fruit growth in apple (Malus × domestica Borkh.).

    Science.gov (United States)

    Dash, Madhumita; Malladi, Anish

    2012-06-25

    Fruit growth in apple (Malus × domestica Borkh.) is mediated by cell production and expansion. Genes involved in regulating these processes and thereby fruit growth, are not well characterized. We hypothesized that the apple homolog(s) of AINTEGUMENTA (ANT), an APETALA2-repeat containing transcription factor, regulates cell production during fruit growth in apple. Two ANT genes, MdANT1 and MdANT2, were isolated from apple and their expression was studied during multiple stages of fruit development. MdANT1 and MdANT2 expression was high during early fruit growth coincident with the period of cell production, rapidly declined during exit from cell production, and remained low during the rest of fruit development. The effects of increase in carbohydrate availability during fruit growth were characterized. Increase in carbohydrate availability enhanced fruit growth largely through an increase in cell production. Expression of MdANT1 and MdANT2 increased sharply by up to around 5-fold in response to an increase in carbohydrate availability. Expression of the ANT genes was compared across two apple genotypes, 'Gala' and 'Golden Delicious Smoothee' (GS), which differ in the extent of fruit growth, largely due to differences in cell production. In comparison to 'Gala', the larger fruit-size genotype, GS, displayed higher levels and a longer duration of MdANT1 and MdANT2 expression. Expression of the ANTs and cell cycle genes in the fruit core and cortex tissues isolated using laser capture microdissection was studied. During early fruit growth, expression of the MdANTs was higher within the cortex, the tissue that constitutes the majority of the fruit. Additionally, MdANT1 and MdANT2 expression was positively correlated with that of A- and B-type CYCLINS, B-type CYCLIN-DEPENDENT-KINASES (CDKBs) and MdDEL1. Multiple lines of evidence from this study suggest that MdANT1 and MdANT2 regulate cell production during fruit growth in apple. ANTs may coordinate the expression of

  5. Dynamics of biopolymers on nanomaterials studied by quasielastic neutron scattering and MD simulations

    Science.gov (United States)

    Dhindsa, Gurpreet K.

    hydrated and dry beta-Casein as a function of temperature, to study the effect of hydration on their flexibility. The Elastic Incoherent Structure Factor (EISF) in the energy domain reveals the fraction of hydrogen atoms participating in motion in a sphere of diffusion. In the time domain analysis, a logarithmic-like decay is observed in the range of picosecond to nanosecond (beta-relaxation time) in the dynamics of hydrated beta-Casein. Our temperature dependent QENS experiments provide evidence that lack of secondary structure in beta-Casein results in higher flexibility in its dynamics and easier reversible thermal unfolding compared to other rigid biomolecules. Lastly, we studied the domain motion of IPPase protein by Neutron Spin Echo Spectroscopy (NSE). We found that decrease in diffusion coefficient belongs to domain motion of IPPase. Moreover, Rg is varied by temperature and concentration.

  6. Comparative analysis of genomic signal processing for microarray data clustering.

    Science.gov (United States)

    Istepanian, Robert S H; Sungoor, Ala; Nebel, Jean-Christophe

    2011-12-01

    Genomic signal processing is a new area of research that combines advanced digital signal processing methodologies for enhanced genetic data analysis. It has many promising applications in bioinformatics and next generation of healthcare systems, in particular, in the field of microarray data clustering. In this paper we present a comparative performance analysis of enhanced digital spectral analysis methods for robust clustering of gene expression across multiple microarray data samples. Three digital signal processing methods: linear predictive coding, wavelet decomposition, and fractal dimension are studied to provide a comparative evaluation of the clustering performance of these methods on several microarray datasets. The results of this study show that the fractal approach provides the best clustering accuracy compared to other digital signal processing and well known statistical methods.

  7. A Comparative Study on Sentiment Analysis and Opinion Mining

    Directory of Open Access Journals (Sweden)

    Praveen Kumar

    2016-04-01

    Full Text Available In today’s world opinions play important role in every aspects of life so, that it is an emerging topic for discussion. It can be calculated as sentimental analysis or opinion mining. All business and important events are based on analysis and feedback of customer reviews in a positive way therefore they increases productivity and performance related to services of items. In our paper we have expressed importance of sentimental analysis and various approaches to achieve bag-of –words in convenient and easy way using opinions techniques and with briefly represented by a diagram. In this paper we have illustrate important field of sentiment analysis for emotion detection, building resources, transfer learning etc. In paper we also covered different view of sentimental analysis approach, their comparison with showing table and in last we have compared different sentimental analysis approach.

  8. Glaucoma Monitoring in a Clinical Setting Glaucoma Progression Analysis vs Nonparametric Progression Analysis in the Groningen Longitudinal Glaucoma Study

    NARCIS (Netherlands)

    Wesselink, Christiaan; Heeg, Govert P.; Jansonius, Nomdo M.

    Objective: To compare prospectively 2 perimetric progression detection algorithms for glaucoma, the Early Manifest Glaucoma Trial algorithm (glaucoma progression analysis [GPA]) and a nonparametric algorithm applied to the mean deviation (MD) (nonparametric progression analysis [NPA]). Methods:

  9. Informatics in Education and Koli Calling: a Comparative Analysis

    Directory of Open Access Journals (Sweden)

    SIMON

    2009-04-01

    Full Text Available The journal Informatics in Education and the conference Koli Calling are compared, starting with Simon's system for the classification of computing education papers and going on to conduct a brief bibliometric analysis of the authors of papers in both publications, including their repeat rates and the countries from which they come. The analysis finds that despite their different natures, the Lithuanian journal and the Finnish conference are highly comparable in many respects. The broad conclusion is that the two publications work well together - but it would be good to see some Lithuanian authors contributing papers to Koli Calling.

  10. A comparative analysis of multi-output frontier models

    Institute of Scientific and Technical Information of China (English)

    Tao ZHANG; Eoghan GARVEY

    2008-01-01

    Recently, there have been more debates on the methods of measuring efficiency. The main objective of this paper is to make a sensitivity analysis for different frontier models and compare the results obtained from the different methods of estimating multi-output frontier for a specific application. The methods include stochastic distance function frontier, stochastic ray frontier,and data envelopment analysis. The stochastic frontier regressions with and without the inefficiency effects model are also com-pared and tested. The results indicate that there are significant correlations between the results obtained from the alternative estimation methods.

  11. CRITICA: coding region identification tool invoking comparative analysis

    Science.gov (United States)

    Badger, J. H.; Olsen, G. J.; Woese, C. R. (Principal Investigator)

    1999-01-01

    Gene recognition is essential to understanding existing and future DNA sequence data. CRITICA (Coding Region Identification Tool Invoking Comparative Analysis) is a suite of programs for identifying likely protein-coding sequences in DNA by combining comparative analysis of DNA sequences with more common noncomparative methods. In the comparative component of the analysis, regions of DNA are aligned with related sequences from the DNA databases; if the translation of the aligned sequences has greater amino acid identity than expected for the observed percentage nucleotide identity, this is interpreted as evidence for coding. CRITICA also incorporates noncomparative information derived from the relative frequencies of hexanucleotides in coding frames versus other contexts (i.e., dicodon bias). The dicodon usage information is derived by iterative analysis of the data, such that CRITICA is not dependent on the existence or accuracy of coding sequence annotations in the databases. This independence makes the method particularly well suited for the analysis of novel genomes. CRITICA was tested by analyzing the available Salmonella typhimurium DNA sequences. Its predictions were compared with the DNA sequence annotations and with the predictions of GenMark. CRITICA proved to be more accurate than GenMark, and moreover, many of its predictions that would seem to be errors instead reflect problems in the sequence databases. The source code of CRITICA is freely available by anonymous FTP (rdp.life.uiuc.edu in/pub/critica) and on the World Wide Web (http:/(/)rdpwww.life.uiuc.edu).

  12. CRITICA: coding region identification tool invoking comparative analysis

    Science.gov (United States)

    Badger, J. H.; Olsen, G. J.; Woese, C. R. (Principal Investigator)

    1999-01-01

    Gene recognition is essential to understanding existing and future DNA sequence data. CRITICA (Coding Region Identification Tool Invoking Comparative Analysis) is a suite of programs for identifying likely protein-coding sequences in DNA by combining comparative analysis of DNA sequences with more common noncomparative methods. In the comparative component of the analysis, regions of DNA are aligned with related sequences from the DNA databases; if the translation of the aligned sequences has greater amino acid identity than expected for the observed percentage nucleotide identity, this is interpreted as evidence for coding. CRITICA also incorporates noncomparative information derived from the relative frequencies of hexanucleotides in coding frames versus other contexts (i.e., dicodon bias). The dicodon usage information is derived by iterative analysis of the data, such that CRITICA is not dependent on the existence or accuracy of coding sequence annotations in the databases. This independence makes the method particularly well suited for the analysis of novel genomes. CRITICA was tested by analyzing the available Salmonella typhimurium DNA sequences. Its predictions were compared with the DNA sequence annotations and with the predictions of GenMark. CRITICA proved to be more accurate than GenMark, and moreover, many of its predictions that would seem to be errors instead reflect problems in the sequence databases. The source code of CRITICA is freely available by anonymous FTP (rdp.life.uiuc.edu in/pub/critica) and on the World Wide Web (http:/(/)rdpwww.life.uiuc.edu).

  13. Gap Analysis Comparing LLNL ISMS and ISO 14001

    Energy Technology Data Exchange (ETDEWEB)

    Doerr, T B

    2004-08-09

    A gap analysis was conducted comparing the Lawrence Livermore National Laboratory (LLNL) Integrated Safety Management System (ISMS) with the international standard ISO 14001 Environmental Management System and with Department of Energy (DOE) Order 450.1. This analysis was accomplished as part of LLNL's assessment of the impacts of adopting DOE Order 450.1 and comprises a portion of its continuous improvement efforts under ISMS.

  14. Comparability of Mixed IC50 Data – A Statistical Analysis

    OpenAIRE

    Tuomo Kalliokoski; Christian Kramer; Anna Vulpetti; Peter Gedeck

    2013-01-01

    The biochemical half maximal inhibitory concentration (IC50) is the most commonly used metric for on-target activity in lead optimization. It is used to guide lead optimization, build large-scale chemogenomics analysis, off-target activity and toxicity models based on public data. However, the use of public biochemical IC50 data is problematic, because they are assay specific and comparable only under certain conditions. For large scale analysis it is not feasible to check each data entry man...

  15. A Comparative Analysis of Chinese and Shona Vowels

    OpenAIRE

    Herbert Mushangwe

    2013-01-01

    This paper is a comparative analysis between Chinese and Shona vowel system. The research is biased towards helping Chinese language learners whose mother tongue is Shona however it is expected to benefit other researchers interested in comparative researches. The main focus of this research is on the major differences that exist between these two languages, with an aim to predict and combat the possible pronunciation errors that may result from native language transfer. The research findings...

  16. Integrative Medicine Program- MD Anderson Cancer Center

    Directory of Open Access Journals (Sweden)

    Richard T Lee

    2012-06-01

    Full Text Available The Integrative Medicine Program at MD Anderson Cancer Center was first established in 1998.  Our mission is to empower patients with cancer and their families to become active partners in their own physical, psycho-spiritual, and social health through personalized education and evidenced-based clinical care to optimize health, quality of life, and clinical outcomes across the cancer continuum.  The program consists of three main components: clinical care, research, and education.  The Integrative Medicine Center provides clinical services to patients through individual and group programs.  The clinical philosophy of the center is to work collaboratively with the oncology teams to build comprehensive and integrative care plans that are personalized, evidence-based, and safe with the goal of improving clinical outcomes.  The individual services comprise of integrative oncology consultation, acupuncture, meditation, music therapy, nutrition, and oncology massage.  The center also provides a variety of group programs including meditation, yoga, tai chi, cooking classes and others.  Over the past 13 years, over 70,000 patients and families have participated in services and programs offered by the center.  The research portfolio focuses on three main areas: mind-body interventions, acupuncture, and meditation.  This lecture will focus on providing an overview of the Integrative Medicine Program at MD Anderson with a focus on the clinical services provided.  Participants will learn about the integrative clinical model and how this is applied to the care of cancer patients at MD Anderson Cancer Center.  Current and future research topics will be discussed as well as patient cases.

  17. Dawbeney Turbervile, MD (1612-1696).

    Science.gov (United States)

    Simunovic, Matthew P

    2012-03-01

    The year 2012 marks the quatercentenary of the birth of Dawbeney Turbervile,MD(1612-1696), one-time Royalist soldier and later ophthalmologist to England’s Princess Anne, the diarist Samuel Pepys, the natural philosopher Robert Boyle, and the astronomer Walter Pope. Turbervile is remarkable for many reasons: He specialized at a time when generalization was prized; though he was a qualified physician, he also practiced the trade of surgery. Furthermore, he provided in his communications with the Royal Society early descriptions of achromatopsia, ocular foreign body removal with a magnet, and tic doloreaux. He is a forebear worth remembering

  18. MD Test of a Ballistic Optics

    CERN Document Server

    Garcia-Tabares Valdivieso, Ana; Salvachua Ferrando, Belen Maria; Skowronski, Piotr Krzysztof; Solfaroli Camillocci, Matteo; Tomas Garcia, Rogelio; Wenninger, Jorg; Coello De Portugal - Martinez Vazquez, Jaime Maria; CERN. Geneva. ATS Department

    2016-01-01

    The ballistic optics is designed to improve the understanding of optical errors and BPM systematic effects in the critical triplet region. The particularity of that optics is that the triplet is switched off, effectively transforming the triplets on both sides of IR1 and IR5 into drift spaces. Advantage can be taken from that fact to localize better errors in the Q4-Q5-triplet region. During this MD this new optics was tested for the first time at injection with beam 2.

  19. Orlando C. Kirton, MD, FACS, FCCM, FCCP.

    Science.gov (United States)

    Pyrtek, Ludwig J

    2007-12-01

    The chair is named for Ludwig J. Pyrtek, MD, an esteemed surgeon at Hartford Hospital, who was devoted to the care of his patients and was an outstanding educator within his chosen field. A unique aspect of the chair is that its income is not used to support the salary of the director but is used to enhance the education activities of the department, such as the purchasing of state-of-the-art teaching devices, support of surgical resident research activities, educational travel for residents and honoraria for nationally/internationally known clinicians/scientists to speak at grand rounds.

  20. StandsSIM-MD: a Management Driven forest SIMulator

    Energy Technology Data Exchange (ETDEWEB)

    Barreiro, S.; Rua, J.; Tomé, M.

    2016-07-01

    Aim of the study. The existing stand level forest simulators available in Portugal were not developed with the aim of including up-to-date model versions and were limited in terms of accounting for forest management. The simulators’ platform, sIMfLOR was recently created to implement different growth models with a common philosophy. The objective was developing one easily-updatable, user-friendly, forest management and climate change sensitive simulator capable of projecting growth for the main tree species in Portugal. Area of the study: Portugal. Material and methods: The new simulator was programmed in a modular form consisting of several modules. The growth module integrates different forest growth and yield models (empirical and process-based) for the main wood production tree species in Portugal (eucalypt, umbrella and maritime pines); whereas the management module drives the growth projections along the planning horizon according to a range of forest management approaches and climate (at present only available for eucalypt). Main results: The main result is the StandsSIM-MD Management Driven simulator that overcomes the limitations of the existing stand level simulators. It is a step forward when compared to the models currently available in the sIMfLOR platform covering more tree species, stand structures and stand compositions. It is focused on end-users and it is based on similar concepts regarding the generation of required inputs and generated outputs. Research highlights: Forest Management Driven simulations approach. Multiple Prescriptions-Per-Stand functionality. StandsSIM-MD can be used to support landowners decisions on stand forest management. StandsSIM-MD simulations at regional level can be combined with optimization routines. (Author)

  1. A comparative analysis of different DEM interpolation methods

    Directory of Open Access Journals (Sweden)

    P.V. Arun

    2013-12-01

    Full Text Available Visualization of geospatial entities generally entails Digital Elevation Models (DEMs that are interpolated to establish three dimensional co-ordinates for the entire terrain. The accuracy of generated terrain model depends on the interpolation mechanism adopted and hence it is needed to investigate the comparative performance of different approaches in this context. General interpolation techniques namely Inverse Distance Weighted, kriging, ANUDEM, Nearest Neighbor, and Spline approaches have been compared. Differential ground field survey has been conducted to generate reference DEM as well as specific set of test points for comparative evaluation. We have also investigated the suitability of Shuttle Radar Topographic Mapper Digital Elevation Mapper for Indian terrain by comparing it with the Survey of India (SOI Digital Elevation Model (DEM. Contours were generated at different intervals for comparative analysis and found SRTM as more suitable. The terrain sensitivity of various methods has also been analyzed with reference to the study area.

  2. comparative analysis of the compressive strength of hollow ...

    African Journals Online (AJOL)

    user

    2016-04-02

    Apr 2, 2016 ... 1,2,3 DEPARTMENT OF CIVIL ENGINEERING, UNIVERSITY OF NIGERIA, NSUKKA, ENUGU STATE, NIGERIA ... This research performed a comparative analysis of the compressive strength ... Print ISSN: 0331-8443, Electronic ISSN: 2467-8821 ..... Journal. of Engineering Project and Production.

  3. Comparative analysis of the efficiencies of two low cost adsorbents ...

    African Journals Online (AJOL)

    Comparative analysis of the efficiencies of two low cost adsorbents in the removal of Cr(VI) ... African Journal of Environmental Science and Technology ... Generally, the result showed an increase in adsorption by Cr(VI) with increase in mass ...

  4. Initial implementation of a comparative data analysis ontology.

    Science.gov (United States)

    Prosdocimi, Francisco; Chisham, Brandon; Pontelli, Enrico; Thompson, Julie D; Stoltzfus, Arlin

    2009-07-03

    Comparative analysis is used throughout biology. When entities under comparison (e.g. proteins, genomes, species) are related by descent, evolutionary theory provides a framework that, in principle, allows N-ary comparisons of entities, while controlling for non-independence due to relatedness. Powerful software tools exist for specialized applications of this approach, yet it remains under-utilized in the absence of a unifying informatics infrastructure. A key step in developing such an infrastructure is the definition of a formal ontology. The analysis of use cases and existing formalisms suggests that a significant component of evolutionary analysis involves a core problem of inferring a character history, relying on key concepts: "Operational Taxonomic Units" (OTUs), representing the entities to be compared; "character-state data" representing the observations compared among OTUs; "phylogenetic tree", representing the historical path of evolution among the entities; and "transitions", the inferred evolutionary changes in states of characters that account for observations. Using the Web Ontology Language (OWL), we have defined these and other fundamental concepts in a Comparative Data Analysis Ontology (CDAO). CDAO has been evaluated for its ability to represent token data sets and to support simple forms of reasoning. With further development, CDAO will provide a basis for tools (for semantic transformation, data retrieval, validation, integration, etc.) that make it easier for software developers and biomedical researchers to apply evolutionary methods of inference to diverse types of data, so as to integrate this powerful framework for reasoning into their research.

  5. Comparative Analysis and Evaluation of Existing Risk Management Software

    Directory of Open Access Journals (Sweden)

    2007-01-01

    Full Text Available The focus of this article lies on the specific features of the existing software packages for risk management differentiating three categories. Representative for these categories we consider the Crystal Ball, Haufe Risikomanager and MIS - Risk Management solutions, outlining the strenghts and weaknesses in a comparative analysis.

  6. Comparative analysis of solid waste management in 20 cities

    NARCIS (Netherlands)

    Wilson, D.C.; Rodic-Wiersma, L.; Scheinberg, A.; Velis, C.A.; Alabaster, G.

    2012-01-01

    This paper uses the ‘lens’ of integrated and sustainable waste management (ISWM) to analyse the new data set compiled on 20 cities in six continents for the UN-Habitat flagship publication Solid Waste Management in the World’s Cities. The comparative analysis looks first at waste generation rates

  7. A Comparative Analysis of Method Books for Class Jazz Instruction

    Science.gov (United States)

    Watson, Kevin E.

    2017-01-01

    The purpose of this study was to analyze and compare instructional topics and teaching approaches included in selected class method books for jazz pedagogy through content analysis methodology. Frequency counts for the number of pages devoted to each defined instructional content category were compiled and percentages of pages allotted to each…

  8. QUALITATIVE COMPARATIVE ANALYSIS OF NOOSPHERE DEVELOPMENT AND KNOWLEDGE ECONOMY

    Directory of Open Access Journals (Sweden)

    Yermolenko V. V.

    2014-12-01

    Full Text Available The article, based on the total problems of formation and development of the knowledge economy, we highlighted the environmental aspect and the comparative analysis of the fundamental ideas of the knowledge economy and the noosphere concept development in terms of their complementarity

  9. A Comparative Analysis of Three Unique Theories of Organizational Learning

    Science.gov (United States)

    Leavitt, Carol C.

    2011-01-01

    The purpose of this paper is to present three classical theories on organizational learning and conduct a comparative analysis that highlights their strengths, similarities, and differences. Two of the theories -- experiential learning theory and adaptive -- generative learning theory -- represent the thinking of the cognitive perspective, while…

  10. Comparative Analysis Of Agricultural News Covered By Federal ...

    African Journals Online (AJOL)

    Comparative Analysis Of Agricultural News Covered By Federal, Stated Owned And Privately Owned Nigerian Newspapers. ... Article Metrics. Metrics Loading ... Metrics powered by PLOS ALM · http://dx.doi.org/10.4314/joten.v10i1.35723.

  11. Comparative Proteomic Analysis of the Fiber Elongating Process in Cotton

    Institute of Scientific and Technical Information of China (English)

    LIU Jin-yuan; YANG Yi-wei; BIAN Shao-min

    2008-01-01

    @@ A comparative proteomic analysis was performed to explore the mechanism of cell elongation in developing cotton fibers.The temporal changes of global proteomes at five representative development stages (5~25 days post-anthesis [DPA]) were examined using 2-D electrophoresis.

  12. ProtoMD: A prototyping toolkit for multiscale molecular dynamics

    Science.gov (United States)

    Somogyi, Endre; Mansour, Andrew Abi; Ortoleva, Peter J.

    2016-05-01

    ProtoMD is a toolkit that facilitates the development of algorithms for multiscale molecular dynamics (MD) simulations. It is designed for multiscale methods which capture the dynamic transfer of information across multiple spatial scales, such as the atomic to the mesoscopic scale, via coevolving microscopic and coarse-grained (CG) variables. ProtoMD can be also be used to calibrate parameters needed in traditional CG-MD methods. The toolkit integrates 'GROMACS wrapper' to initiate MD simulations, and 'MDAnalysis' to analyze and manipulate trajectory files. It facilitates experimentation with a spectrum of coarse-grained variables, prototyping rare events (such as chemical reactions), or simulating nanocharacterization experiments such as terahertz spectroscopy, AFM, nanopore, and time-of-flight mass spectroscopy. ProtoMD is written in python and is freely available under the GNU General Public License from github.com/CTCNano/proto_md.

  13. Comparative Analysis of Cryptography Library in IoT

    Science.gov (United States)

    Kumar, Uday; Borgohain, Tuhin; Sanyal, Sugata

    2015-05-01

    The paper aims to do a survey along with a comparative analysis of the various cryptography libraries that are applicable in the field of Internet of Things (IoT). The first half of the paper briefly introduces the various cryptography libraries available in the field of cryptography along with a list of all the algorithms contained within the libraries. The second half of the paper deals with cryptography libraries specifically aimed for application in the field of Internet of Things. The various libraries and their performance analysis listed down in this paper are consolidated from various sources with the aim of providing a single comprehensive repository for reference to the various cryptography libraries and the comparative analysis of their features in IoT.

  14. StandsSIM-MD: a Management Driven forest SIMulator

    Directory of Open Access Journals (Sweden)

    Susana Barreiro

    2016-07-01

    Full Text Available Aim of the study: The existing stand level forest simulators available in Portugal were not developed with the aim of including up-to-date model versions and were limited in terms of accounting for forest management. The simulators’ platform, sIMfLOR was recently created to implement different growth models with a common philosophy. The objective was developing one easily-updatable, user-friendly, forest management and climate change sensitive simulator capable of projecting growth for the main tree species in Portugal. Area of the study: Portugal. Material and methods: The new simulator was programmed in a modular form consisting of several modules. The growth module integrates different forest growth and yield models (empirical and process-based for the main wood production tree species in Portugal (eucalypt, umbrella and maritime pines; whereas the management module drives the growth projections along the planning horizon according to a range of forest management approaches and climate (at present only available for eucalypt. Main results: The main result is the StandsSIM-MD Management Driven simulator that overcomes the limitations of the existing stand level simulators. It is a step forward when compared to the models currently available in the sIMfLOR platform covering more tree species, stand structures and stand compositions. It is focused on end-users and it is based on similar concepts regarding the generation of required inputs and generated outputs. Research highlights: -          Forest Management Driven simulations approach -          Multiple Prescriptions-Per-Stand functionality -          StandsSIM-MD can be used to support landowners decisions on stand forest management -          StandsSIM-MD simulations at regional level can be combined with optimization routines Keywords: Forest simulator, Forest Management Approaches; StandsSIM-MD; forest management.

  15. A comparison of the American Society of Cataract and Refractive Surgery post-myopic LASI K/PRK intraocular lens (IOL) calculator and the Ocular MD IOL calculator.

    Science.gov (United States)

    Demill, David L; Moshirfar, Majid; Neuffer, Marcus C; Hsu, Maylon; Sikder, Shameema

    2011-01-01

    To compare the average values of the American Society of Cataract and Refractive Surgery (ASCRS) and Ocular MD intraocular lens (IOL) calculators to assess their accuracy in predicting IOL power in patients with prior laser-in-situ keratomileusis (LASIK) or photorefractive keratectomy. In this retrospective study, data from 21 eyes with previous LASIK or photorefractive keratectomy for myopia and subsequent cataract surgery was used in an IOL calculator comparison. The predicted IOL powers of the Ocular MD SRK/T, Ocular MD Haigis, and ASCRS averages were compared. The Ocular MD average (composed of an average of Ocular MD SRK/T and Ocular MD Haigis) and the all calculator average (composed of an average of Ocular MD SRK/T, Ocular MD Haigis, and ASCRS) were also compared. Primary outcome measures were mean arithmetic and absolute IOL prediction error, variance in mean arithmetic IOL prediction error, and the percentage of eyes within ±0.50 and ±1.00 D. The Ocular MD SRK/T and Ocular MD Haigis averages produced mean arithmetic IOL prediction errors of 0.57 and -0.61 diopters (D), respectively, which were significantly larger than errors from the ASCRS, Ocular MD, and all calculator averages (0.11, -0.02, and 0.02 D, respectively, all P < 0.05). There was no statistically significant difference between the methods in absolute IOL prediction error, variance, or the percentage of eyes with outcomes within ±0.50 and ±1.00 D. The ASCRS average was more accurate in predicting IOL power than the Ocular MD SRK/T and Ocular MD Haigis averages alone. Our methods using combinations of these averages which, when compared with the individual averages, showed a trend of decreased mean arithmetic IOL prediction error, mean absolute upper limit of IOL prediction error, and variance, while increasing the percentage of outcomes within ±0.50 D.

  16. Comparative secretome analysis of rat stomach under different nutritional status

    Directory of Open Access Journals (Sweden)

    Lucia L. Senin

    2015-06-01

    Full Text Available The fact that gastric surgery is at the moment the most effective treatment to fight against obesity highlights the relevance of gastric derived proteins as potential targets to treat this pathology. Taking advantage of a previously established gastric explant model for endocrine studies, the proteomic analysis of gastric secretome was performed. To validate this gastric explant system for proteomic analysis, the identification of ghrelin, a classical gastric derived peptide, was performed by MS. In addition, the differential analysis of gastric secretomes under differential nutritional status (control feeding vs fasting vs re-feeding was performed. The MS identified proteins are showed in the present manuscript. The data supplied in this article is related to the research article entitled “Comparative secretome analysis of rat stomach under different nutritional status” [1].

  17. BLAT-Based Comparative Analysis for Transposable Elements: BLATCAT

    Directory of Open Access Journals (Sweden)

    Sangbum Lee

    2014-01-01

    Full Text Available The availability of several whole genome sequences makes comparative analyses possible. In primate genomes, the priority of transposable elements (TEs is significantly increased because they account for ~45% of the primate genomes, they can regulate the gene expression level, and they are associated with genomic fluidity in their host genomes. Here, we developed the BLAST-like alignment tool (BLAT based comparative analysis for transposable elements (BLATCAT program. The BLATCAT program can compare specific regions of six representative primate genome sequences (human, chimpanzee, gorilla, orangutan, gibbon, and rhesus macaque on the basis of BLAT and simultaneously carry out RepeatMasker and/or Censor functions, which are widely used Windows-based web-server functions to detect TEs. All results can be stored as a HTML file for manual inspection of a specific locus. BLATCAT will be very convenient and efficient for comparative analyses of TEs in various primate genomes.

  18. BLAT-based comparative analysis for transposable elements: BLATCAT.

    Science.gov (United States)

    Lee, Sangbum; Oh, Sumin; Kang, Keunsoo; Han, Kyudong

    2014-01-01

    The availability of several whole genome sequences makes comparative analyses possible. In primate genomes, the priority of transposable elements (TEs) is significantly increased because they account for ~45% of the primate genomes, they can regulate the gene expression level, and they are associated with genomic fluidity in their host genomes. Here, we developed the BLAST-like alignment tool (BLAT) based comparative analysis for transposable elements (BLATCAT) program. The BLATCAT program can compare specific regions of six representative primate genome sequences (human, chimpanzee, gorilla, orangutan, gibbon, and rhesus macaque) on the basis of BLAT and simultaneously carry out RepeatMasker and/or Censor functions, which are widely used Windows-based web-server functions to detect TEs. All results can be stored as a HTML file for manual inspection of a specific locus. BLATCAT will be very convenient and efficient for comparative analyses of TEs in various primate genomes.

  19. Dermoscopy analysis of RGB-images based on comparative features

    Science.gov (United States)

    Myakinin, Oleg O.; Zakharov, Valery P.; Bratchenko, Ivan A.; Artemyev, Dmitry N.; Neretin, Evgeny Y.; Kozlov, Sergey V.

    2015-09-01

    In this paper, we propose an algorithm for color and texture analysis for dermoscopic images of human skin based on Haar wavelets, Local Binary Patterns (LBP) and Histogram Analysis. This approach is a modification of «7-point checklist» clinical method. Thus, that is an "absolute" diagnostic method because one is using only features extracted from tumor's ROI (Region of Interest), which can be selected manually and/or using a special algorithm. We propose additional features extracted from the same image for comparative analysis of tumor and healthy skin. We used Euclidean distance, Cosine similarity, and Tanimoto coefficient as comparison metrics between color and texture features extracted from tumor's and healthy skin's ROI separately. A classifier for separating melanoma images from other tumors has been built by SVM (Support Vector Machine) algorithm. Classification's errors with and without comparative features between skin and tumor have been analyzed. Significant increase of recognition quality with comparative features has been demonstrated. Moreover, we analyzed two modes (manual and automatic) for ROI selecting on tumor and healthy skin areas. We have reached 91% of sensitivity using comparative features in contrast with 77% of sensitivity using the only "absolute" method. The specificity was the invariable (94%) in both cases.

  20. Comparative genomic analysis of eutherian interferon-γ-inducible GTPases.

    Science.gov (United States)

    Premzl, Marko

    2012-11-01

    The interferon-γ-inducible GTPases, IFGGs, are intracellular proteins involved in immune response against pathogens. A comprehensive comparative genomic review and analysis of eutherian IFGGs was carried out using public genomic sequences. The 64 eutherian IFGG genes were examined in detail and annotated. The eutherian IFGG promoter types were first catalogued followed by a phylogenetic analysis of eutherian IFGGs, which described five major IFGG clusters. The patterns of differential gene expansions and protein regions that may regulate IFGG catalytic features suggested a new classification of eutherian IFGGs. This mini-review has also provided new tests of reliability of public genomic sequences as well as tests of protein molecular evolution.

  1. Comparative Genomics via Wavelet Analysis for Closely Related Bacteria

    Directory of Open Access Journals (Sweden)

    Jiuzhou Song

    2004-01-01

    Full Text Available Comparative genomics has been a valuable method for extracting and extrapolating genome information among closely related bacteria. The efficiency of the traditional methods is extremely influenced by the software method used. To overcome the problem here, we propose using wavelet analysis to perform comparative genomics. First, global comparison using wavelet analysis gives the difference at a quantitative level. Then local comparison using keto-excess or purine-excess plots shows precise positions of inversions, translocations, and horizontally transferred DNA fragments. We firstly found that the level of energy spectra difference is related to the similarity of bacteria strains; it could be a quantitative index to describe the similarities of genomes. The strategy is described in detail by comparisons of closely related strains: S.typhi CT18, S.typhi Ty2, S.typhimurium LT2, H.pylori 26695, and H.pylori J99.

  2. Comparative Genomics via Wavelet Analysis for Closely Related Bacteria

    Science.gov (United States)

    Song, Jiuzhou; Ware, Tony; Liu, Shu-Lin; Surette, M.

    2004-12-01

    Comparative genomics has been a valuable method for extracting and extrapolating genome information among closely related bacteria. The efficiency of the traditional methods is extremely influenced by the software method used. To overcome the problem here, we propose using wavelet analysis to perform comparative genomics. First, global comparison using wavelet analysis gives the difference at a quantitative level. Then local comparison using keto-excess or purine-excess plots shows precise positions of inversions, translocations, and horizontally transferred DNA fragments. We firstly found that the level of energy spectra difference is related to the similarity of bacteria strains; it could be a quantitative index to describe the similarities of genomes. The strategy is described in detail by comparisons of closely related strains: S.typhi CT18, S.typhi Ty2, S.typhimurium LT2, H.pylori 26695, and H.pylori J99.

  3. Mammalian comparative sequence analysis of the Agrp locus.

    Directory of Open Access Journals (Sweden)

    Christopher B Kaelin

    Full Text Available Agouti-related protein encodes a neuropeptide that stimulates food intake. Agrp expression in the brain is restricted to neurons in the arcuate nucleus of the hypothalamus and is elevated by states of negative energy balance. The molecular mechanisms underlying Agrp regulation, however, remain poorly defined. Using a combination of transgenic and comparative sequence analysis, we have previously identified a 760 bp conserved region upstream of Agrp which contains STAT binding elements that participate in Agrp transcriptional regulation. In this study, we attempt to improve the specificity for detecting conserved elements in this region by comparing genomic sequences from 10 mammalian species. Our analysis reveals a symmetrical organization of conserved sequences upstream of Agrp, which cluster into two inverted repeat elements. Conserved sequences within these elements suggest a role for homeodomain proteins in the regulation of Agrp and provide additional targets for functional evaluation.

  4. A novel comparative molecule/pseudo receptor interaction analysis

    Institute of Scientific and Technical Information of China (English)

    ZHOU Peng; TONG Jianbo; TIAN Feifei; LI Zhiliang

    2006-01-01

    Comparative molecule/pseudo receptor interaction analysis (CoMPIA) is developed as a novel 3D-QSAR method by adding postulated pseudo receptor and GA-optimized probe into comparative molecular field analysis (CoMFA). CoMPIA is used to find the pseudo receptor mode by optimizing probe distributions and to establish the optimal model of high qualities and good interpretations. Correlative coefficient R2, cross-validated correlative coefficient Q2 and root mean square error RMSEP of the resulting model are 0.940, 0.868 and 0.502, respectively by applying CoMPIA to quantitative structure-activity relationship (QSAR) of 31 classical steroids.

  5. Strategic planning effectiveness comparative analysis of the Macedonian context

    Directory of Open Access Journals (Sweden)

    Bobek Šuklev

    2012-01-01

    Full Text Available Strategic planning is an important element in the organizational success and the key to effectiveness and overall competitiveness of the organizations. Strategic planning practice and effectiveness has been the subject of much academic debate in the Western context, but little empirical research and comparative analysis exists on this subject in emerging and developing countries. The aim of this study is to investigate the relationship between strategic planning and the organizational effectiveness with the examination of a wider list of strategic planning dimensions and different approaches and measures to assess the strategic planning effectiveness in the case of the Republic of Macedonia, as well as to conduct comparative analysis of the strategic planning effectiveness in different emerging and developing countries. After the initial processing of the total number of received questionnaires, 113 questionnaires proceeded to the next phase of processing, as companies were found to be strategic planners. Two regression models were performed, enclosed with necessary tests, as well as in order to achieve unidimensionality, factor analysis was performed for all stated items for each of the investigated variables. The empirical analysis conducted in Macedonian companies shows that strategic planning can generally contribute to organizational effectiveness. A significant correlation between different strategic planning dimensions and the strategic planning effectiveness was found in the relationship between the formality of strategic planning, the management participation in strategic planning and the employee participation in strategic planning. The comparative analysis conducted in this study with the purpose of comparing the case of Republic of Macedonia with the studies in the other emerging and developing counties, and indicating the probable reasons for potential differences in strategic planning effectiveness in different counties, refers to

  6. Initial Implementation of a comparative Data Analysis Ontology

    Directory of Open Access Journals (Sweden)

    Francisco Prosdocimi

    2009-01-01

    Full Text Available Comparative analysis is used throughout biology. When entities under comparison (e.g. proteins, genomes, species are related by descent, evolutionary theory provides a framework that, in principle, allows N-ary comparisons of entities, while controlling for non-independence due to relatedness. Powerful software tools exist for specialized applications of this approach, yet it remains under-utilized in the absence of a unifying informatics infrastructure. A key step in developing such an infrastructure is the definition of a formal ontology. The analysis of use cases and existing formalisms suggests that a significant component of evolutionary analysis involves a core problem of inferring a character history, relying on key concepts: “Operational Taxonomic Units” (OTUs, representing the entities to be compared; “character-state data” representing the observations compared among OTUs; “phylogenetic tree”, representing the historical path of evolution among the entities; and “transitions”, the inferred evolutionary changes in states of characters that account for observations. Using the Web Ontology Language (OWL, we have defined these and other fundamental concepts in a Comparative Data Analysis Ontology (CDAO. CDAO has been evaluated for its ability to represent token data sets and to support simple forms of reasoning. With further development, CDAO will provide a basis for tools (for semantic transformation, data retrieval, validation, integration, etc. that make it easier for software developers and biomedical researchers to apply evolutionary methods of inference to diverse types of data, so as to integrate this powerful framework for reasoning into their research.

  7. Comparative visual analysis of 3D urban wind simulations

    Science.gov (United States)

    Röber, Niklas; Salim, Mohamed; Grawe, David; Leitl, Bernd; Böttinger, Michael; Schlünzen, Heinke

    2016-04-01

    Climate simulations are conducted in large quantity for a variety of different applications. Many of these simulations focus on global developments and study the Earth's climate system using a coupled atmosphere ocean model. Other simulations are performed on much smaller regional scales, to study very small fine grained climatic effects. These microscale climate simulations pose similar, yet also different, challenges for the visualization and the analysis of the simulation data. Modern interactive visualization and data analysis techniques are very powerful tools to assist the researcher in answering and communicating complex research questions. This presentation discusses comparative visualization for several different wind simulations, which were created using the microscale climate model MITRAS. The simulations differ in wind direction and speed, but are all centered on the same simulation domain: An area of Hamburg-Wilhelmsburg that hosted the IGA/IBA exhibition in 2013. The experiments contain a scenario case to analyze the effects of single buildings, as well as examine the impact of the Coriolis force within the simulation. The scenario case is additionally compared with real measurements from a wind tunnel experiment to ascertain the accuracy of the simulation and the model itself. We also compare different approaches for tree modeling and evaluate the stability of the model. In this presentation, we describe not only our workflow to efficiently and effectively visualize microscale climate simulation data using common 3D visualization and data analysis techniques, but also discuss how to compare variations of a simulation and how to highlight the subtle differences in between them. For the visualizations we use a range of different 3D tools that feature techniques for statistical data analysis, data selection, as well as linking and brushing.

  8. Initial Implementation of a Comparative Data Analysis Ontology

    Directory of Open Access Journals (Sweden)

    Francisco Prosdocimi

    2009-07-01

    Full Text Available Comparative analysis is used throughout biology. When entities under comparison (e.g. proteins, genomes, species are related by descent, evolutionary theory provides a framework that, in principle, allows N-ary comparisons of entities, while controlling for non-independence due to relatedness. Powerful software tools exist for specialized applications of this approach, yet it remains under-utilized in the absence of a unifying informatics infrastructure. A key step in developing such an infrastructure is the definition of a formal ontology. The analysis of use cases and existing formalisms suggests that a significant component of evolutionary analysis involves a core problem of inferring a character history, relying on key concepts: “Operational Taxonomic Units” (OTUs, representing the entities to be compared; “character-state data” representing the observations compared among OTUs; “phylogenetic tree”, representing the historical path of evolution among the entities; and “transitions”, the inferred evolutionary changes in states of characters that account for observations. Using the Web Ontology Language (OWL, we have defined these and other fundamental concepts in a Comparative Data Analysis Ontology (CDAO. CDAO has been evaluated for its ability to represent token data sets and to support simple forms of reasoning. With further development, CDAO will provide a basis for tools (for semantic transformation, data retrieval, validation, integration, etc. that make it easier for software developers and biomedical researchers to apply evolutionary methods of inference to diverse types of data, so as to integrate this powerful framework for reasoning into their research.

  9. Comparative analysis of some brushless motors based on catalog data

    Directory of Open Access Journals (Sweden)

    Anton Kalapish

    2005-10-01

    Full Text Available Brushless motors (polyphased AC induction, synchronous and brushless DC motors have no alternatives in modern electric drives. They possess highly efficient and very wide range of speeds. The objective of this paper is to represent some relation between the basic parameters and magnitudes of electrical machines. This allows to be made a comparative analysis and a choice of motor concerning each particular case based not only on catalogue data or price for sale.

  10. COMPARATIVE ANALYSIS OF CELEBRITY AND NON-CELEBRITY ADVERTISEMENT

    Directory of Open Access Journals (Sweden)

    Ammar Asad

    2013-12-01

    Full Text Available This study is undertaken to make a comparative analysis of celebrity advertisement and non-celebrity advertisement with respect to attitude toward advertisement, attitude toward brand, purchase intentions, and advertising attributes. For this purpose, a simple random sample of 200 students studying four different disciplines was taken from the Private University in Lahore. For econometric proof, reliability analysis, descriptive analysis, and independent sample T-test was used to interpret the results. Our findings show that there is no significant difference between celebrity and non-celebrity advertisement with respect to attitude toward advertisement, attitude toward brand, purchasing intentions, and advertising attributes. The limitations and recommendations of this research are also given.

  11. MUNICIPAL INDICATORS SYSTEM SUSTAINABLE DEVELOPMENT: A COMPARATIVE ANALYSIS

    Directory of Open Access Journals (Sweden)

    Anderson Saccol Ferreira

    2015-12-01

    Full Text Available The article analyzes the indicators of sustainable development in the municipalities of Chapeco , Joaçaba , Port Union and Mafra, which developed the urban and territorial expansion of the West and North of the Santa Catarina region during the twentieth century . Thus, the objective of the analysis is to identify the similarities and differences of municipal sustainable development of each municipality , proposing alternative ways to improve these indexes, through the concepts Sachs (1997. The work is guided by a comparative analysis of data considering the indicators in 2012 and 2014 , through a survey of documentary approach . From this analysis , identified and demonstrated the points with disabilities, but at the same time essential to raise the indices of sustainability of municipalities in socio-cultural terms, economic, environmental and political

  12. Comparing methods for analysis of biomedical hyperspectral image data

    Science.gov (United States)

    Leavesley, Silas J.; Sweat, Brenner; Abbott, Caitlyn; Favreau, Peter F.; Annamdevula, Naga S.; Rich, Thomas C.

    2017-02-01

    Over the past 2 decades, hyperspectral imaging technologies have been adapted to address the need for molecule-specific identification in the biomedical imaging field. Applications have ranged from single-cell microscopy to whole-animal in vivo imaging and from basic research to clinical systems. Enabling this growth has been the availability of faster, more effective hyperspectral filtering technologies and more sensitive detectors. Hence, the potential for growth of biomedical hyperspectral imaging is high, and many hyperspectral imaging options are already commercially available. However, despite the growth in hyperspectral technologies for biomedical imaging, little work has been done to aid users of hyperspectral imaging instruments in selecting appropriate analysis algorithms. Here, we present an approach for comparing the effectiveness of spectral analysis algorithms by combining experimental image data with a theoretical "what if" scenario. This approach allows us to quantify several key outcomes that characterize a hyperspectral imaging study: linearity of sensitivity, positive detection cut-off slope, dynamic range, and false positive events. We present results of using this approach for comparing the effectiveness of several common spectral analysis algorithms for detecting weak fluorescent protein emission in the midst of strong tissue autofluorescence. Results indicate that this approach should be applicable to a very wide range of applications, allowing a quantitative assessment of the effectiveness of the combined biology, hardware, and computational analysis for detecting a specific molecular signature.

  13. Novel matrine derivative MD-1 attenuates hepatic fibrosis by inhibiting EGFR activation of hepatic stellate cells.

    Science.gov (United States)

    Feng, Yi; Ying, Hai-Yan; Qu, Ying; Cai, Xiao-Bo; Xu, Ming-Yi; Lu, Lun-Gen

    2016-09-01

    Matrine (MT), the effective component of Sophora flavescens Ait, has been shown to have anti-inflammation, immune-suppressive, anti-tumor, and anti-hepatic fibrosis activities. However, the pharmacological effects of MT still need to be strengthened due to its relatively low efficacy and short half-life. In the present study, we report a more effective thio derivative of MT, MD-1, and its inhibitory effects on the activation of hepatic stellate cells (HSCs) in both cell culture and animal models. Cytological experiments showed that MD-1 can inhibit the proliferation of HSC-T6 cells with a half-maximal inhibitory concentration (IC50) of 62 μmol/L. In addition, MD-1 more strongly inhibits the migration of HSC-T6 cells compared to MT and can more effectively induce G0/G1 arrest and apoptosis. Investigating the biological mechanisms underlying anti-hepatic fibrosis in the presence of MD-1, we found that MD-1 can bind the epidermal growth factor receptor (EGFR) on the surface of HSC-T6 cells, which can further inhibit the phosphorylation of EGFR and its downstream protein kinase B (Akt), resulting in decreased expression of cyclin D1 and eventual inhibition of the activation of HSC-T6 cells. Furthermore, in rats with dimethylnitrosamine (DMN)-induced hepatic fibrosis, MD-1 slowed the development and progression of hepatic fibrosis, protecting hepatic parenchymal cells and improving hepatic functions. Therefore, MD-1 is a potential drug for anti-hepatic fibrosis.

  14. Current Tools and Methods in Molecular Dynamics (MD) Simulations for Drug Design.

    Science.gov (United States)

    Hernández-Rodríguez, Maricarmen; Rosales-Hernández, Martha C; Mendieta-Wejebe, Jessica E; Martínez-Archundia, Marlet; Basurto, José Correa

    2016-01-01

    Molecular Dynamics (MD) simulations is a computational method that employs Newton's laws to evaluate the motions of water, ions, small molecules, and macromolecules or more complex systems, for example, whole viruses, to reproduce the behavior of the biological environment, including water molecules and lipid membranes. Specifically, structural motions, such as those that are dependent of the temperature and solute/ solvent are very important to study the recognition pattern of ligandprotein or protein-protein complexes, in that sense, MD simulations are very useful because these motions can be modeled using this methodology. Furthermore, MD simulations for drug design provide insights into the structural cavities required to design novel structures with higher affinity to the target. Also, the employment of MD simulations to drug design can help to refine the three-dimensional (3D) structure of targets in order to obtain a better sampling of the binding poses and more reliable affinity values with better structural advantages, because they incorporate some biological conditions that include structural motions compared to traditional docking procedures. This work analyzes the concepts and applicability of MD simulations for drug design because molecular structural motions are considered, and these help to identify hot spots, decipher structural details in the reported protein sites, as well as to eliminate sites that could be structural artifacts which could be originated from the structural characterization conditions from MD. Moreover, better free energy values for protein ligand recognition can also be obtained, and these can be validated under experimental procedures due to the robustness of the MD simulation methods.

  15. GATA: a graphic alignment tool for comparative sequence analysis

    Directory of Open Access Journals (Sweden)

    Nix David A

    2005-01-01

    Full Text Available Abstract Background Several problems exist with current methods used to align DNA sequences for comparative sequence analysis. Most dynamic programming algorithms assume that conserved sequence elements are collinear. This assumption appears valid when comparing orthologous protein coding sequences. Functional constraints on proteins provide strong selective pressure against sequence inversions, and minimize sequence duplications and feature shuffling. For non-coding sequences this collinearity assumption is often invalid. For example, enhancers contain clusters of transcription factor binding sites that change in number, orientation, and spacing during evolution yet the enhancer retains its activity. Dot plot analysis is often used to estimate non-coding sequence relatedness. Yet dot plots do not actually align sequences and thus cannot account well for base insertions or deletions. Moreover, they lack an adequate statistical framework for comparing sequence relatedness and are limited to pairwise comparisons. Lastly, dot plots and dynamic programming text outputs fail to provide an intuitive means for visualizing DNA alignments. Results To address some of these issues, we created a stand alone, platform independent, graphic alignment tool for comparative sequence analysis (GATA http://gata.sourceforge.net/. GATA uses the NCBI-BLASTN program and extensive post-processing to identify all small sub-alignments above a low cut-off score. These are graphed as two shaded boxes, one for each sequence, connected by a line using the coordinate system of their parent sequence. Shading and colour are used to indicate score and orientation. A variety of options exist for querying, modifying and retrieving conserved sequence elements. Extensive gene annotation can be added to both sequences using a standardized General Feature Format (GFF file. Conclusions GATA uses the NCBI-BLASTN program in conjunction with post-processing to exhaustively align two DNA

  16. Extended phenotype and clinical subgroups in unilateral Meniere disease: A cross-sectional study with cluster analysis.

    Science.gov (United States)

    Frejo, L; Martin-Sanz, E; Teggi, R; Trinidad, G; Soto-Varela, A; Santos-Perez, S; Manrique, R; Perez, N; Aran, I; Almeida-Branco, M S; Batuecas-Caletrio, A; Fraile, J; Espinosa-Sanchez, J M; Perez-Guillen, V; Perez-Garrigues, H; Oliva-Dominguez, M; Aleman, O; Benitez, J; Perez, P; Lopez-Escamez, J A

    2017-02-06

    To define clinical subgroups by cluster analysis in patients with unilateral Meniere disease (MD) and to compare them with the clinical subgroups found in bilateral MD. A cross-sectional study with a two-step cluster analysis. A tertiary referral multicenter study. Nine hundred and eighty-eight adult patients with unilateral MD. best predictors to define clinical subgroups with potential different aetiologies. We established five clusters in unilateral MD. Group 1 is the most frequently found, includes 53% of patients, and it is defined as the sporadic, classic MD without migraine and without autoimmune disorder (AD). Group 2 is found in 8% of patients, and it is defined by hearing loss, which antedates the vertigo episodes by months or years (delayed MD), without migraine or AD in most of cases. Group 3 involves 13% of patients, and it is considered familial MD, while group 4, which includes 15% of patients, is linked to the presence of migraine in all cases. Group 5 is found in 11% of patients and is defined by a comorbid AD. We found significant differences in the distribution of AD in clusters 3, 4 and 5 between patients with uni- and bilateral MD. Cluster analysis defines clinical subgroups in MD, and it extends the phenotype beyond audiovestibular symptoms. This classification will help to improve the phenotyping in MD and facilitate the selection of patients for randomised clinical trials. © 2017 John Wiley & Sons Ltd.

  17. Canine Mammary Carcinomas: A Comparative Analysis of Altered Gene Expression

    Directory of Open Access Journals (Sweden)

    Farruk M. Lutful Kabir

    2015-12-01

    Full Text Available Breast cancer represents the second most frequent neoplasm in humans and sexually intact female dogs after lung and skin cancers, respectively. Many similar features in human and dog cancers including, spontaneous development, clinical presentation, tumor heterogeneity, disease progression and response to conventional therapies have supported development of this comparative model as an alternative to mice. The highly conserved similarities between canine and human genomes are also key to this comparative analysis, especially when compared to the murine genome. Studies with canine mammary tumor (CMT models have shown a strong genetic correlation with their human counterparts, particularly in terms of altered expression profiles of cell cycle regulatory genes, tumor suppressor and oncogenes and also a large group of non-coding RNAs or microRNAs (miRNAs. Because CMTs are considered predictive intermediate models for human breast cancer, similarities in genetic alterations and cancer predisposition between humans and dogs have raised further interest. Many cancer-associated genetic defects critical to mammary tumor development and oncogenic determinants of metastasis have been reported and appear to be similar in both species. Comparative analysis of deregulated gene sets or cancer signaling pathways has shown that a significant proportion of orthologous genes are comparably up- or down-regulated in both human and dog breast tumors. Particularly, a group of cell cycle regulators called cyclin-dependent kinase inhibitors (CKIs acting as potent tumor suppressors are frequently defective in CMTs. Interestingly, comparative analysis of coding sequences has also shown that these genes are highly conserved in mammals in terms of their evolutionary divergence from a common ancestor. Moreover, co-deletion and/or homozygous loss of the INK4A/ARF/INK4B (CDKN2A/B locus, encoding three members of the CKI tumor suppressor gene families (p16/INK4A, p14ARF and p15

  18. MD1228: Validation of Single Bunch Stability Threshold & MD1751: Instability Studies with a Single Beam

    CERN Document Server

    Carver, Lee Robert; Biancacci, Nicolo; Buffat, Xavier; Iadarola, Giovanni; Lasocha, Kacper; Li, Kevin Shing Bruce; Levens, Tom; Metral, Elias; Salvant, Benoit; Tambasco, Claudia; CERN. Geneva. ATS Department

    2017-01-01

    Instabilities were being routinely observed in B1V during ADJUST. The timing of the instabilities has been localised to shortly after the TOTEM bump has been implemented. The result is emittance blowup which can negatively effect the luminosity output of the fill. This MD aimed to rule out possible sources of the instability (i.e. beam-beam effects or electron cloud) by only taking one single beam to 6.5TeV and going through the full machine cycle. After the implementation of the TOTEM bump, a reduction of the octupole current was performed in order to determine if there was a discrepancy in the threshold between simulations and measurement. As a precursor, the results of the End of Fill MD: Validation of Single Bunch Stability Threshold will also be described.

  19. BI MD studies on April 22nd 2012 (LHC MD-1)

    CERN Document Server

    Baer, T; Boccardi, A; Burger, S; Calvo, E; Dehning, B; Emery, J; Gasior, M; Guerrero, A; Jones, R; Lefevre, T; Gras, JJ; Rabiller, A; Roncarolo, F; Sapinski, M; Steinhagen, R; Trad, G

    2012-01-01

    During the LHC MD block 1 in 2012, eight hours were dedicated to beam instrumentation studies. Such a period was spent mainly for estimating the betatron functions at the location of the transverse profile monitors in IR4 via the K-Modulation method and for characterizing the BSRT extraction mirror heating with high intensity beams. This note discusses the measurements summary, including some final and some preliminary results.

  20. Establishing a framework for comparative analysis of genome sequences

    Energy Technology Data Exchange (ETDEWEB)

    Bansal, A.K.

    1995-06-01

    This paper describes a framework and a high-level language toolkit for comparative analysis of genome sequence alignment The framework integrates the information derived from multiple sequence alignment and phylogenetic tree (hypothetical tree of evolution) to derive new properties about sequences. Multiple sequence alignments are treated as an abstract data type. Abstract operations have been described to manipulate a multiple sequence alignment and to derive mutation related information from a phylogenetic tree by superimposing parsimonious analysis. The framework has been applied on protein alignments to derive constrained columns (in a multiple sequence alignment) that exhibit evolutionary pressure to preserve a common property in a column despite mutation. A Prolog toolkit based on the framework has been implemented and demonstrated on alignments containing 3000 sequences and 3904 columns.

  1. Efficacy of escitalopram compared to citalopram: a meta-analysis.

    Science.gov (United States)

    Montgomery, Stuart; Hansen, Thomas; Kasper, Siegfried

    2011-03-01

    The aim of this review was to assess the clinical relevance of the relative antidepressant efficacy of escitalopram and citalopram by meta-analysis. Studies in major depressive disorder (MDD) with both escitalopram and citalopram treatment arms were identified. Adult patients had to meet DSM-IV criteria for MDD. The primary outcome measure was the treatment difference in Montgomery-Asberg Depression Rating Scale (MADRS) total score at week 8 (or last assessment if escitalopram, n=995; citalopram, n=1014). Escitalopram was significantly more effective than citalopram in overall treatment effect, with an estimated mean treatment difference of 1.7 points at week 8 (or last assessment if escitalopram. In this meta-analysis, the statistically significant superior efficacy of escitalopram compared to citalopram was shown to be clinically relevant.

  2. Systems design and comparative analysis of large antenna concepts

    Science.gov (United States)

    Garrett, L. B.; Ferebee, M. J., Jr.

    1983-01-01

    Conceptual designs are evaluated and comparative analyses conducted for several large antenna spacecraft for Land Mobile Satellite System (LMSS) communications missions. Structural configurations include trusses, hoop and column and radial rib. The study was conducted using the Interactive Design and Evaluation of Advanced Spacecraft (IDEAS) system. The current capabilities, development status, and near-term plans for the IDEAS system are reviewed. Overall capabilities are highlighted. IDEAS is an integrated system of computer-aided design and analysis software used to rapidly evaluate system concepts and technology needs for future advanced spacecraft such as large antennas, platforms, and space stations. The system was developed at Langley to meet a need for rapid, cost-effective, labor-saving approaches to the design and analysis of numerous missions and total spacecraft system options under consideration. IDEAS consists of about 40 technical modules efficient executive, data-base and file management software, and interactive graphics display capabilities.

  3. A comparative analysis of Media Lengua and Quichua vowel production.

    Science.gov (United States)

    Stewart, Jesse

    2014-01-01

    This study presents a comparative analysis of F1 and F2 vowel frequencies from Pijal Media Lengua (PML) and Imbabura Quichua. Mixed-effects models are used to test Spanish-derived high and low vowels against their Quichua-derived counterparts for statistical significance. Spanish-derived and Quichua-derived high vowels are also tested against Spanish-derived mid vowels. This analysis suggests that PML may be manipulating as many as eight vowels where Spanishderived high and low vowels coexist as near-mergers with their Quichua-derived counterparts, while high and mid vowels coexist with partial overlap. Quichua, traditionally viewed as a three-vowel system, shows similar results and may be manipulating as many as six vowels. © 2015 S. Karger AG, Basel.

  4. Comparative analysis of old, recycled and new PV modules

    Directory of Open Access Journals (Sweden)

    Haroon Ashfaq

    2017-01-01

    Full Text Available This paper presents comparative analysis of old, recycled and new PV modules. It is possible to recycle even very old products by modern standard processes in a value-conserving manner. About 90% of the materials recovered from solar panels can be recycled into useful products. Carbon emission and energy cost are low in manufacturing recycled SPV. Modules can be manufactured with recycled materials and reinstalled in systems as a full quality product with today’s technology good for another 25–30 years. Analysis of all the models of PV module is done with the help of MATLAB. This helps in comparison and proves the effectiveness of the recycled PV module based systems.

  5. Comparative analysis of minor histocompatibility antigens genotyping methods

    Directory of Open Access Journals (Sweden)

    A. S. Vdovin

    2016-01-01

    Full Text Available The wide range of techniques could be employed to find mismatches in minor histocompatibility antigens between transplant recipients and their donors. In the current study we compared three genotyping methods based on polymerase chain reaction (PCR for four minor antigens. Three of the tested methods: allele-specific PCR, restriction fragment length polymorphism and real-time PCR with TaqMan probes demonstrated 100% reliability when compared to Sanger sequencing for all of the studied polymorphisms. High resolution melting analysis was unsuitable for genotyping of one of the tested minor antigens (HA-1 as it has linked synonymous polymorphism. Obtained data could be used to select the strategy for large-scale clinical genotyping.

  6. Sequence and comparative analysis of Leuconostoc dairy bacteriophages.

    Science.gov (United States)

    Kot, Witold; Hansen, Lars H; Neve, Horst; Hammer, Karin; Jacobsen, Susanne; Pedersen, Per D; Sørensen, Søren J; Heller, Knut J; Vogensen, Finn K

    2014-04-17

    Bacteriophages attacking Leuconostoc species may significantly influence the quality of the final product. There is however limited knowledge of this group of phages in the literature. We have determined the complete genome sequences of nine Leuconostoc bacteriophages virulent to either Leuconostoc mesenteroides or Leuconostoc pseudomesenteroides strains. The phages have dsDNA genomes with sizes ranging from 25.7 to 28.4 kb. Comparative genomics analysis helped classify the 9 phages into two classes, which correlates with the host species. High percentage of similarity within the classes on both nucleotide and protein levels was observed. Genome comparison also revealed very high conservation of the overall genomic organization between the classes. The genes were organized in functional modules responsible for replication, packaging, head and tail morphogenesis, cell lysis and regulation and modification, respectively. No lysogeny modules were detected. To our knowledge this report provides the first comparative genomic work done on Leuconostoc dairy phages.

  7. Comparative and functional analysis of cardiovascular-related genes

    Energy Technology Data Exchange (ETDEWEB)

    Cheng, Jan-Fang; Pennacchio, Len A.

    2003-09-01

    The ability to detect putative cis-regulatory elements in cardiovascular-related genes has been accelerated by the availability of genomic sequence data from numerous vertebrate species and the recent development of comparative genomic tools. This improvement is anticipated to lead to a better understanding of the complex regulatory architecture of cardiovascular (CV) genes and how genetic variants in these non-coding regions can potentially play a role in cardiovascular disease. This manuscript reviews a recently established database dedicated to the comparative sequence analysis of 250 human CV genes of known importance, 37 of which currently contain sequence comparison data for organisms beyond those of human, mouse and rat. These data have provided a glimpse into the variety of possible insights from deep vertebrate sequence comparisons and the identification of putative gene regulatory elements.

  8. A Comparative Performance Analysis of Topological Routing Protocols in VANET

    Directory of Open Access Journals (Sweden)

    KAVITA KHATKAR

    2016-05-01

    Full Text Available Vehicular Ad-hoc Network has drawn the attention of various researchers all around the world in the recent years. The reason can be attributed towards its capability in solving real world problems like traffic congestion. Although quite useful, the development of such systems is inherited with some challenges. The development of efficient communication protocols is one of the major problems which need to be addressed. This paper presents a comparative analysis of three such algorithms namely; AODV, DSDV and ZRP. The algorithms are implemented using Network Simulator and their performance is compared in terms of throughput, Packet Delivery Ratio and End-to-End delay. The result shows that none of the algorithms performs best in terms of all parameters while AODV and ZRP’s performance are quite encouraging in terms of throughput and PDR.

  9. Comparative analysis of vitamin status of schoolchildren in recreational period

    Directory of Open Access Journals (Sweden)

    Podrigalo L.V.

    2013-10-01

    Full Text Available It is a comparative analysis of the characteristics of the vitamin status of schoolchildren during the summer recreation of 90th years of the last century and now. The study involved 167 schoolchildren aged 11-14 years. With the help of questionnaires developed by the authors assessed the severity of symptoms of vitamin deficiency, the prevalence of vitamin supplementation, frequency and volume of consumption of fruits and vegetables. It is confirmed that the saturation is the state of the vitamin in children is the best compared with data from 20 years ago, the state of multi-vitamin deficiency is replaced mono-vitamin deficit. The results, data evaluation and the availability of additional fortification of the diet of fruit and vegetables support the need for measures aimed at improving vitamin status. Using the questionnaire method is most appropriate for monitoring the vitamin status of schoolchildren.

  10. The digital storytelling process: A comparative analysis from various experts

    Science.gov (United States)

    Hussain, Hashiroh; Shiratuddin, Norshuhada

    2016-08-01

    Digital Storytelling (DST) is a method of delivering information to the audience. It combines narrative and digital media content infused with the multimedia elements. In order for the educators (i.e the designers) to create a compelling digital story, there are sets of processes introduced by experts. Nevertheless, the experts suggest varieties of processes to guide them; of which some are redundant. The main aim of this study is to propose a single guide process for the creation of DST. A comparative analysis is employed where ten DST models from various experts are analysed. The process can also be implemented in other multimedia materials that used the concept of DST.

  11. Comparative Analysis of Uncertainties in Urban Surface Runoff Modelling

    DEFF Research Database (Denmark)

    Thorndahl, Søren; Schaarup-Jensen, Kjeld

    2007-01-01

    In the present paper a comparison between three different surface runoff models, in the numerical urban drainage tool MOUSE, is conducted. Analysing parameter uncertainty, it is shown that the models are very sensitive with regards to the choice of hydrological parameters, when combined overflow...... analysis, further research in improved parameter assessment for surface runoff models is needed....... volumes are compared - especially when the models are uncalibrated. The occurrences of flooding and surcharge are highly dependent on both hydrological and hydrodynamic parameters. Thus, the conclusion of the paper is that if the use of model simulations is to be a reliable tool for drainage system...

  12. Comparative Analysis of Measured and Predicted Shrinkage Strain in Concrete

    Directory of Open Access Journals (Sweden)

    Kossakowski P. G.

    2014-06-01

    Full Text Available The article discusses the issues related to concrete shrinkage. The basic information on the phenomenon is presented as well as the factors that determine the contraction are pointed out and the stages of the process are described. The guidance for estimating the shrinkage strain is given according to Eurocode standard PN-EN 1992-1-1:2008. The results of studies of the samples shrinkage strain of concrete C25/30 are presented with a comparative analysis of the results estimated by the guidelines of the standard according to PN-EN 1992-1- 1:2008

  13. Comparative Analysis of the Value Added Tax Evolution

    Directory of Open Access Journals (Sweden)

    Mirela Anca Postole

    2013-06-01

    Full Text Available The impact of indirect taxes is analysed in the study of evolution, especially the VAT for the economic activity of the company studied. During the reporting period, namely January 2009 – December 2011 the supporting documents were checked which records on VAT deductible and collected were based on, in compliance with legal norms and principles of financial accounting. Also the data processed were the basis for an analysis to compare the evolution of VAT. VAT shall be paid for the entire activity of the company.

  14. COMPARATIVE ANALYSIS OF THE ORGANIZATIONAL STRUCTURES IN SOME EU COUNTRIES

    Directory of Open Access Journals (Sweden)

    Ioana Raluca Goldbach

    2016-03-01

    Full Text Available The comparative analysis of organizational structures highlights similarities and differences between different factors influencing a company in its way of operation with the internal and/or external environment. The paper analyzes the organizational structures of some top companies from England, France and Romania that influence/determine the cultural organizational values and the norms elaborated and implemented, which, in time, become moral values and norms that acquire a social meaning, which means that they have been accepted by all the members of the organization.

  15. Quantitative and comparative analysis of hyperspectral data fusion performance

    Institute of Scientific and Technical Information of China (English)

    王强; 张晔; 李硕; 沈毅

    2002-01-01

    Hyperspectral data fusion technique is the key to hyperspectral data processing in recent years. Manyfusion methods have been proposed, but little research has been done to evaluate the performances of differentdata fusion methods. In order to meet the urgent need, quantitative correlation analysis (QCA) is proposed toanalyse and compare the performances of different fusion methods directly from data before and after fusion. Ex-periment results show that the new method is effective and the results of comparison are in agreement with theresults of application.

  16. INNOVATION IN SMES, A COMPARATIVE ANALYSIS BETWEEN JAPAN AND SPAIN

    OpenAIRE

    ALEGRE DEL BARRIO, SANDRA

    2016-01-01

    [ES] En el presente trabajo denominado “Innovation in SMEs, a comparative analysis between Japan and Spain.” se estudia la innovación en las PYMEs del sector auxiliar de la automoción teniendo en cuenta uno los factores que ejercen una mayor presión a las empresas para mejorar su eficacia y efectividad, la innovación. Con ella se han conseguido diferentes puntos de vista y formas de actuar y son estas diferencias las que nos brindan la oportunidad de pensar más allá de los está...

  17. Comparative analysis of model assessment in community detection

    CERN Document Server

    Kawamoto, Tatsuro

    2016-01-01

    Bayesian cluster inference with a flexible generative model allows us to detect various types of structures. However, it has problems stemming from computational complexity and difficulties in model assessment. We consider the stochastic block model with restricted hyperparameter space, which is known to correspond to modularity maximization. We show that it not only reduces computational complexity, but is also beneficial for model assessment. Using various criteria, we conduct a comparative analysis of the model assessments, and analyze whether each criterion tends to overfit or underfit. We also show that the learning of hyperparameters leads to qualitative differences in Bethe free energy and cross-validation errors.

  18. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.

    Science.gov (United States)

    Riechmann, J L; Heard, J; Martin, G; Reuber, L; Jiang, C; Keddie, J; Adam, L; Pineda, O; Ratcliffe, O J; Samaha, R R; Creelman, R; Pilgrim, M; Broun, P; Zhang, J Z; Ghandehari, D; Sherman, B K; Yu, G

    2000-12-15

    The completion of the Arabidopsis thaliana genome sequence allows a comparative analysis of transcriptional regulators across the three eukaryotic kingdoms. Arabidopsis dedicates over 5% of its genome to code for more than 1500 transcription factors, about 45% of which are from families specific to plants. Arabidopsis transcription factors that belong to families common to all eukaryotes do not share significant similarity with those of the other kingdoms beyond the conserved DNA binding domains, many of which have been arranged in combinations specific to each lineage. The genome-wide comparison reveals the evolutionary generation of diversity in the regulation of transcription.

  19. Peace Negotiations in the Third World: A Comparative Analysis

    Directory of Open Access Journals (Sweden)

    Raúl Benítez Manaut

    1995-01-01

    Full Text Available In this article the negotiations and peace processes in the Third World are analized from a comparative viewpoint in order to focus in on the case of Centroamerica. Reference is made to the special features and common elements of those peace processes in otherregions of the Third World and they are compared to those which have taken place in Centroamerica. It is a retrospective and comparative analysis. For this reason, the author has decided to carry out a brief typology of those conflicts offered by Centroamerica: inNicaragua, El Salvador and Guatemala. Later, the author goes on to analyse the most relevant peace and negotiation processes involving the Third World including one or two from Latin America: the cases of Panama, Afghanistan, Iran-Iraq, Colombia, southern Africa (South Africa, Namibia and Angola and Cambodia. Later, the author goes overthe peace process periods in Centroamerica and the temporary contradictions which are presented by internal conflict, regional conflict and geopolitical conflict. Finally, a comparative methodological exercise is carried out which allows to focus on modes of implementation of the peace processes.

  20. Feature-level sentiment analysis by using comparative domain corpora

    Science.gov (United States)

    Quan, Changqin; Ren, Fuji

    2016-06-01

    Feature-level sentiment analysis (SA) is able to provide more fine-grained SA on certain opinion targets and has a wider range of applications on E-business. This study proposes an approach based on comparative domain corpora for feature-level SA. The proposed approach makes use of word associations for domain-specific feature extraction. First, we assign a similarity score for each candidate feature to denote its similarity extent to a domain. Then we identify domain features based on their similarity scores on different comparative domain corpora. After that, dependency grammar and a general sentiment lexicon are applied to extract and expand feature-oriented opinion words. Lastly, the semantic orientation of a domain-specific feature is determined based on the feature-oriented opinion lexicons. In evaluation, we compare the proposed method with several state-of-the-art methods (including unsupervised and semi-supervised) using a standard product review test collection. The experimental results demonstrate the effectiveness of using comparative domain corpora.

  1. Comparative transcriptome analysis of the metal hyperaccumulator Noccaea caerulescens

    Directory of Open Access Journals (Sweden)

    Pauliina eHalimaa

    2014-05-01

    Full Text Available The metal hyperaccumulator Noccaea caerulescens is an established model to study the adaptation of plants to metalliferous soils. Various comparators have been used in these studies. The choice of suitable comparators is important and depends on the hypothesis to be tested and methods to be used. In high-throughput analyses such as microarray, N. caerulescens has been compared to non-tolerant, non-accumulator plants like Arabidopsis thaliana or Thlaspi arvense rather than to the related hypertolerant or hyperaccumulator plants. An underutilized source is N. caerulescens populations with considerable variation in their capacity to accumulate and tolerate metals. Whole transcriptome sequencing (RNA-Seq is revealing interesting variation in their gene expression profiles. Combining physiological characteristics of N. caerulescens accessions with their RNA-Seq has a great potential to provide detailed insight into the underlying molecular mechanisms, including entirely new gene products. In this review we will critically consider comparative transcriptome analyses carried out to explore metal hyperaccumulation and hypertolerance of N. caerulescens, and demonstrate the potential of RNA-Seq analysis as a tool in evolutionary genomics.

  2. MD5算法在Web开发中的应用%Application of MD5 in Web Exploitation

    Institute of Scientific and Technical Information of China (English)

    刘啸

    2014-01-01

    介绍了MD5加密技术在Web上的一些应用,给出了MD5加密实现密码在internet上安全传输的完整解决办法,给出了客户端(JavaScript)和服务器端(JavaBeans) MD5算法的实现.

  3. CIVIL LIABILITY FOR NUCLEAR DAMAGE: COMPARATIVE ANALYSIS OF INTERNATIONAL TREATIES

    Directory of Open Access Journals (Sweden)

    Laura Rimšaitė

    2013-06-01

    Full Text Available It was widely accepted that nuclear damage might be extensive and spread to other countries. International civil liability for nuclear damage is embodied by two major instruments: International Atomic Energy Agency (IAEA 1963 Vienna Convention on Civil liability for Nuclear Damage and Paris Convention of 1960 on third party liability (OECD with its amending protocols. Major problem arises because of lack of coherence and for this reason supplementary conventions and protocols has been adopted but sufficient results has not been achieved. International treaties on civil liability for nuclear damage are mostly based upon principles of operator’s exclusive, channeling, strict liability for nuclear damage, mandatory financial coverage, compensation without discrimination. These principles set ground for the appropriate compensation standard thus minimizing the difficulty level of complicated legal cross-actions and identifies certain subjects in individual cases who are liable also allows a concentration of the insurance capacity. Although Conventions sets similar principles, Europe remains in two different liability regimes which cover differences of liability amounts, scope of application, rules of jurisdiction conflicts. Problem of legal coherence at European Union level also arises because Member States are either parties to the Paris Convention or Vienna Convention at different speeds. This research paper provides an in-depth analysis of international legal framework development and impetus to create trans-boundary compensation mechanisms thus to foster development of European Union nuclear energy market and to provide higher protection for victims inside and outside the country where the incident has occurred. Purpose – provide comparative analysis of international treaties which regulate civil liability for nuclear damage in the context of European Union nuclear energy market development. Design/methodology - paper is based on document

  4. Single and Multiple Hand Gesture Recognition Systems: A Comparative Analysis

    Directory of Open Access Journals (Sweden)

    Siddharth Rautaray

    2014-10-01

    Full Text Available With the evolution of higher computing speed, efficient communication technologies, and advanced display techniques the legacy HCI techniques become obsolete and are no more helpful in accurate and fast flow of information in present day computing devices. Hence the need of user friendly human machine interfaces for real time interfaces for human computer interaction have to be designed and developed to make the man machine interaction more intuitive and user friendly. The vision based hand gesture recognition affords users with the ability to interact with computers in more natural and intuitive ways. These gesture recognition systems generally consist of three main modules like hand segmentation, hand tracking and gesture recognition from hand features, designed using different image processing techniques which are further integrated with different applications. An increase use of new interfaces based on hand gesture recognition designed to cope up with the computing devices for interaction. This paper is an effort to provide a comparative analysis between such real time vision based hand gesture recognition systems which are based on interaction using single and multiple hand gestures. Single hand gesture based recognition systems (SHGRS have fewer complexes to implement, with a constraint to the count of different gestures which is large enough with various permutations and combinations of gesture, which is possible with multiple hands in multiple hand gesture recognition systems (MHGRS. The thorough comparative analysis has been done on various other vital parameters for the recognition systems.

  5. Thermal buckling comparative analysis using Different FE (Finite Element) tools

    Energy Technology Data Exchange (ETDEWEB)

    Banasiak, Waldemar; Labouriau, Pedro [INTECSEA do Brasil, Rio de Janeiro, RJ (Brazil); Burnett, Christopher [INTECSEA UK, Surrey (United Kingdom); Falepin, Hendrik [Fugro Engineers SA/NV, Brussels (Belgium)

    2009-12-19

    High operational temperature and pressure in offshore pipelines may lead to unexpected lateral movements, sometimes call lateral buckling, which can have serious consequences for the integrity of the pipeline. The phenomenon of lateral buckling in offshore pipelines needs to be analysed in the design phase using FEM. The analysis should take into account many parameters, including operational temperature and pressure, fluid characteristic, seabed profile, soil parameters, coatings of the pipe, free spans etc. The buckling initiation force is sensitive to small changes of any initial geometric out-of-straightness, thus the modeling of the as-laid state of the pipeline is an important part of the design process. Recently some dedicated finite elements programs have been created making modeling of the offshore environment more convenient that has been the case with the use of general purpose finite element software. The present paper aims to compare thermal buckling analysis of sub sea pipeline performed using different finite elements tools, i.e. general purpose programs (ANSYS, ABAQUS) and dedicated software (SAGE Profile 3D) for a single pipeline resting on an the seabed. The analyses considered the pipeline resting on a flat seabed with a small levels of out-of straightness initiating the lateral buckling. The results show the quite good agreement of results of buckling in elastic range and in the conclusions next comparative analyses with sensitivity cases are recommended. (author)

  6. Comparative Analysis of Results of Online and Offline Customer Satisfaction

    Directory of Open Access Journals (Sweden)

    Jovović Milorad

    2017-05-01

    Full Text Available The logic that customer satisfaction is the starting point of marketing and business activities is based on the assumption that customer satisfaction leads to customer loyalty, keeping in mind all of the positive effects that customer loyalty has on business success of an organization. Because of this, marketing and management theory and practice dedicate particular attention to the concepts of customer satisfaction and loyalty. In this paper we will use the surveys of customers of banking services not only to show the levels of their satisfaction and loyalty, but also to make a comparative analysis of data obtained through online and offline research. This approach was made possible because the research was carried out on a sample which was divided in two groups. All of the participants answered the questions from a unique questionnaire, however, one group took the survey via the Internet (online while data from the other group of participants was collected in the field by using printed questionnaires (offline. The findings of the comparative analysis of online and offline survey results are presented in the final part of the paper.

  7. Comparative Analysis of Congestion Control Algorithms Using ns-2

    Directory of Open Access Journals (Sweden)

    Sanjeev Patel

    2011-09-01

    Full Text Available In order to curtail the escalating packet loss rates caused by an exponential increase in network traffic, active queue management techniques such as Random Early Detection (RED have come into picture. Flow Random Early Drop (FRED keeps state based on instantaneous queue occupancy of a given flow. FRED protects fragile flows by deterministically accepting flows from low bandwidth connections and fixes several shortcomings of RED by computing queue length during both arrival and departure of the packet. Stochastic Fair Queuing (SFQ ensures fair access to network resources and prevents a busty flow from consuming more than its fair share. In case of (Random Exponential Marking REM, the key idea is to decouple congestion measure from performance measure (loss, queue length or delay. Stabilized RED (SRED is another approach of detecting nonresponsive flows. In this paper, we have shown a comparative analysis of throughput, delay and queue length for the various congestion control algorithms RED, SFQ and REM. We also included the comparative analysis of loss rate having different bandwidth for these algorithms.

  8. A Comparative Analysis of Polish and Czech International New Ventures

    Directory of Open Access Journals (Sweden)

    Lidia Danik

    2016-06-01

    Full Text Available The goal of this paper is to compare the characteristics of Polish and Czech companies which follow the Born Global internationalization model. More concretely, the analysis aims to discover the differences or similarities in terms of the internationalization paths of Polish and Czech SMEs in the characteristics of their managers in terms of the so-called “international vision” and in their innovativeness level. The introductory part of article provides a description of this internationalization model and the International New Ventures traits (INV and summarizes the recent studies on this topic conducted in Poland and Czech Republic. In the empirical part, the International New Ventures from the two countries are compared. The Polish sample includes 105 companies which were surveyed with use of computer assisted telephone interviews in autumn 2014. For the Czech Republic, the sample consists of 54 small and medium-sized companies, which were surveyed using the computer assisted web interviews from November 2013 till January 2014. The surveyed companies in both countries fulfilled the definition of Born Globals. Descriptive statistics, cross-tabulation analysis and non-parametric tests are applied to accomplish the goals of the paper.

  9. Short Chosen-Prefix Collisions for MD5 and the Creation of a Rogue CA Certificate

    NARCIS (Netherlands)

    Stevens, M.M.J.; Sotirov, A.; Appelbaum, J.; Lenstra, A.K.; Molnar, D.; Osvik, D.A.; Weger, B. de

    2009-01-01

    We present a refined chosen-prefix collision construction for MD5 that allowed creation of a rogue Certification Authority (CA) certificate, based on a collision with a regular end-user website certificate provided by a commercial CA. Compared to the previous construction from Eurocrypt 2007, this p

  10. The Comparative Analysis of Aversive and Ordinary Noise.

    Science.gov (United States)

    Mobley, C. Marion, Jr.

    There is a vast amount of literature concerning the psychological and physiological effects of ordinary noise on the individual. However, few publications have addressed the analysis of aversive noise. This research analyzes three noises which produce the familiar goose flesh or chilling effect responsivity. These aversive sounds which are made by chalk squeaking on the chalkboard, fingernails on the chalkboard and rubbing styrofoam against a smooth surface are digitally compared to ordinary noise to show how these aversive sounds differ from sounds which are only annoying. This work, which uses Fast Fourier Transform (FFT) analysis is a combination with cross correlation analysis and other innovative methods to produce comparative data on noises, illustrates subtle differences between ordinary and aversive noise which may be useful for future work in acoustics or experimental psychology. The literature review shows disagreement among the numerous works on the effects of ordinary noise on human subjects. One explanation for this difference is the failure to adequately measure and define the dynamic nature of the noise used. The existing literature also establishes that a mixture of tones plus random noise is more annoying (but not aversive) than either the random noise or the tones alone. This investigation shows that one property of aversive noises is the combination of randomness plus tones which vary rapidly with time. This paper utilizes a new digital technique which improves the FFT analyzer resolution by a factor of 25. The resulting +/-2 Hz accuracy facilitated the presentation of frequency variation as a function of time data. Other computer generated graphical data includes the percent harmonic deviation as a function of time, the rate of change of fundamental frequency, and the rate of change in harmonic deviation. From these dynamic data, average values are calculated which show the aversive noise to be consistently greater in mean frequency deviation

  11. Mycobacterial species as case-study of comparative genome analysis.

    Science.gov (United States)

    Zakham, F; Belayachi, L; Ussery, D; Akrim, M; Benjouad, A; El Aouad, R; Ennaji, M M

    2011-02-08

    The genus Mycobacterium represents more than 120 species including important pathogens of human and cause major public health problems and illnesses. Further, with more than 100 genome sequences from this genus, comparative genome analysis can provide new insights for better understanding the evolutionary events of these species and improving drugs, vaccines, and diagnostics tools for controlling Mycobacterial diseases. In this present study we aim to outline a comparative genome analysis of fourteen Mycobacterial genomes: M. avium subsp. paratuberculosis K—10, M. bovis AF2122/97, M. bovis BCG str. Pasteur 1173P2, M. leprae Br4923, M. marinum M, M. sp. KMS, M. sp. MCS, M. tuberculosis CDC1551, M. tuberculosis F11, M. tuberculosis H37Ra, M. tuberculosis H37Rv, M. tuberculosis KZN 1435 , M. ulcerans Agy99,and M. vanbaalenii PYR—1, For this purpose a comparison has been done based on their length of genomes, GC content, number of genes in different data bases (Genbank, Refseq, and Prodigal). The BLAST matrix of these genomes has been figured to give a lot of information about the similarity between species in a simple scheme. As a result of multiple genome analysis, the pan and core genome have been defined for twelve Mycobacterial species. We have also introduced the genome atlas of the reference strain M. tuberculosis H37Rv which can give a good overview of this genome. And for examining the phylogenetic relationships among these bacteria, a phylogenic tree has been constructed from 16S rRNA gene for tuberculosis and non tuberculosis Mycobacteria to understand the evolutionary events of these species.

  12. Texture analysis of multiple sclerosis: a comparative study.

    Science.gov (United States)

    Zhang, Jing; Tong, Longzheng; Wang, Lei; Li, Ning

    2008-10-01

    The difficulty of using magnetic resonance imaging (MRI) to support early diagnosis of multiple sclerosis (MS) stems from the subtle pathological changes in the central nervous system (CNS). In this study, texture analysis was performed on MR images of MS patients and normal controls and a combined set of texture features were explored in order to better discriminate tissues between MS lesions, normal appearing white matter (NAWM) and normal white matter (NWM). Features were extracted from gradient matrix, run-length (RL) matrix, gray level co-occurrence matrix (GLCM), autoregressive (AR) model and wavelet analysis, and were selected based on greatest difference between different tissue types. The results of the combined set of texture features were compared with our previous results of GLCM-based features alone. The results of this study demonstrated that (1) with the combined set of texture features, classification was perfect (100%) between MS lesions and NAWM (or NWM), less successful (88.89%) among the three tissue types and worst (58.33%) between NAWM and NWM; (2) compared with GLCM-based features, the combined set of texture features were better at discriminating MS lesions and NWM, equally good at discriminating MS lesions and NAWM and at all three tissue types, but less effective in classification between NAWM and NWM. This study suggested that texture analysis with the combined set of texture features may be equally good or more advantageous than the commonly used GLCM-based features alone in discriminating MS lesions and NWM/NAWM and in supporting early diagnosis of MS.

  13. In silico comparative genomic analysis of GABAA receptor transcriptional regulation

    Directory of Open Access Journals (Sweden)

    Joyce Christopher J

    2007-06-01

    Full Text Available Abstract Background Subtypes of the GABAA receptor subunit exhibit diverse temporal and spatial expression patterns. In silico comparative analysis was used to predict transcriptional regulatory features in individual mammalian GABAA receptor subunit genes, and to identify potential transcriptional regulatory components involved in the coordinate regulation of the GABAA receptor gene clusters. Results Previously unreported putative promoters were identified for the β2, γ1, γ3, ε, θ and π subunit genes. Putative core elements and proximal transcriptional factors were identified within these predicted promoters, and within the experimentally determined promoters of other subunit genes. Conserved intergenic regions of sequence in the mammalian GABAA receptor gene cluster comprising the α1, β2, γ2 and α6 subunits were identified as potential long range transcriptional regulatory components involved in the coordinate regulation of these genes. A region of predicted DNase I hypersensitive sites within the cluster may contain transcriptional regulatory features coordinating gene expression. A novel model is proposed for the coordinate control of the gene cluster and parallel expression of the α1 and β2 subunits, based upon the selective action of putative Scaffold/Matrix Attachment Regions (S/MARs. Conclusion The putative regulatory features identified by genomic analysis of GABAA receptor genes were substantiated by cross-species comparative analysis and now require experimental verification. The proposed model for the coordinate regulation of genes in the cluster accounts for the head-to-head orientation and parallel expression of the α1 and β2 subunit genes, and for the disruption of transcription caused by insertion of a neomycin gene in the close vicinity of the α6 gene, which is proximal to a putative critical S/MAR.

  14. Comparability of mixed IC₅₀ data - a statistical analysis.

    Science.gov (United States)

    Kalliokoski, Tuomo; Kramer, Christian; Vulpetti, Anna; Gedeck, Peter

    2013-01-01

    The biochemical half maximal inhibitory concentration (IC50) is the most commonly used metric for on-target activity in lead optimization. It is used to guide lead optimization, build large-scale chemogenomics analysis, off-target activity and toxicity models based on public data. However, the use of public biochemical IC50 data is problematic, because they are assay specific and comparable only under certain conditions. For large scale analysis it is not feasible to check each data entry manually and it is very tempting to mix all available IC50 values from public database even if assay information is not reported. As previously reported for Ki database analysis, we first analyzed the types of errors, the redundancy and the variability that can be found in ChEMBL IC50 database. For assessing the variability of IC50 data independently measured in two different labs at least ten IC50 data for identical protein-ligand systems against the same target were searched in ChEMBL. As a not sufficient number of cases of this type are available, the variability of IC50 data was assessed by comparing all pairs of independent IC50 measurements on identical protein-ligand systems. The standard deviation of IC50 data is only 25% larger than the standard deviation of Ki data, suggesting that mixing IC50 data from different assays, even not knowing assay conditions details, only adds a moderate amount of noise to the overall data. The standard deviation of public ChEMBL IC50 data, as expected, resulted greater than the standard deviation of in-house intra-laboratory/inter-day IC50 data. Augmenting mixed public IC50 data by public Ki data does not deteriorate the quality of the mixed IC50 data, if the Ki is corrected by an offset. For a broad dataset such as ChEMBL database a Ki- IC50 conversion factor of 2 was found to be the most reasonable.

  15. Extreme storm surges: a comparative study of frequency analysis approaches

    Science.gov (United States)

    Hamdi, Y.; Bardet, L.; Duluc, C.-M.; Rebour, V.

    2014-08-01

    In France, nuclear facilities were designed around very low probabilities of failure. Nevertheless, some extreme climatic events have given rise to exceptional observed surges (outliers) much larger than other observations, and have clearly illustrated the potential to underestimate the extreme water levels calculated with the current statistical methods. The objective of the present work is to conduct a comparative study of three approaches to extreme value analysis, including the annual maxima (AM), the peaks-over-threshold (POT) and the r-largest order statistics (r-LOS). These methods are illustrated in a real analysis case study. All data sets were screened for outliers. Non-parametric tests for randomness, homogeneity and stationarity of time series were used. The shape and scale parameter stability plots, the mean excess residual life plot and the stability of the standard errors of return levels were used to select optimal thresholds and r values for the POT and r-LOS method, respectively. The comparison of methods was based on (i) the uncertainty degrees, (ii) the adequacy criteria and tests, and (iii) the visual inspection. It was found that the r-LOS and POT methods have reduced the uncertainty on the distribution parameters and return level estimates and have systematically shown values of the 100 and 500-year return levels smaller than those estimated with the AM method. Results have also shown that none of the compared methods has allowed a good fit at the right tail of the distribution in the presence of outliers. As a perspective, the use of historical information was proposed in order to increase the representativeness of outliers in data sets. Findings are of practical relevance, not only to nuclear energy operators in France, for applications in storm surge hazard analysis and flood management, but also for the optimal planning and design of facilities to withstand extreme environmental conditions, with an appropriate level of risk.

  16. LHC MD 1279: Bunch Flattening in Physics

    CERN Document Server

    AUTHOR|(CDS)2073675; Baudrenghien, Philippe; Esteban Muller, Juan; Shaposhnikova, Elena; CERN. Geneva. ATS Department

    2017-01-01

    Vertex reconstruction is not accurate enough for LHCb when the bunch length in physics shrinks below about 0.9 ns. The end-of-fill MD studies presented here proved that bunch flattening using sinusoidal RF modulation is a loss-free method to increase the r.m.s. bunch length and flatten the bunch profile. Furthermore, the optimum modulation parameters to be used in physics have been identified. Subsequently, bunch flattening in physics was used operationally with a modulation frequency of 98.75 % of the central synchrotron frequency and 0.6 modulation amplitude, resulting in a 150-200 ps increase in the BQM-measured bunch length. A ‘mid-of-fill’ test at arrival to flat top revealed that also the bunch distribution created by the controlled emittance blow-up during the ramp is affected when bunch flattening is applied. The measurements took place on 17th June and the 4th, 7th and 22nd July 2016. Operational cases are shown as well.

  17. Leroy D Vandam, MD: an anesthesia journey.

    Science.gov (United States)

    Ortega, Rafael A

    2005-08-01

    Leroy D Vandam, MD was a remarkable man--an intricate amalgamation of an artist, scientist, and physician. He was a bastion of medical historical knowledge. Dr Vandam became a most influential anesthesiologist, some say, a giant. He was an example of someone who, with resolve, overcame adversity. His artwork is displayed in countless places, and several of his paintings form part of the Wood Library Museum Heritage Series. Dr Vandam was first a surgeon, but he abandoned surgery and pursued a career in anesthesiology under the leadership of Robert Dripps. He completed his residency training at the University of Pennsylvania and joined its staff in 1949. When he arrived at Brigham and Women's Hospital in the 1950s as director of anesthesia, he embarked on one of the most illustrious careers in American anesthesiology. Dr Vandam published more than 250 original articles, chapters, abstracts, and other reports on a wide variety of subjects including history, art, and pharmacology. His classic article on the complications of neuroaxial blocks is a seminal work in anesthesiology. This article describes how an anesthesiologist who shared an interest with Dr Vandam in the history of anesthesiology came to produce a movie based on his career, the evolution of anesthesia equipment, and the transformation of our specialty.

  18. Orbit Feedback Operation with RCBX (MD 1209)

    CERN Document Server

    Wenninger, Jorg; Nisbet, David; Ponce, Laurette; Louro Alves, Diogo Miguel; CERN. Geneva. ATS Department

    2017-01-01

    The LHC Orbit Feedback (OFB) is able to drive any orbit corrector circuit (COD) to steer the LHC orbit. But during the first feedback tests in 2010, all attempts to use the common triplet orbit correctors (MCBX) failed because the QPS system installed to protect those magnets triggered power aborts as soon as the OFB steered the beam with those CODs. The reason was most likely the violation of the RCBX circuit acceleration limits. For this reason the MCBX orbit correctors were never driven by the OFB in regular operation. Although the performance of the OFB is generally excellent, the quality of the beam steering around IRs could be improved if the OFB could correct the orbit with the MCBX to counteract locally triplet quadrupole movements. The aim of this MD was to make a new attempt to use the MCBX in the OFB. The test was successful at injection (no circuit trip) and failed during the ramp (QPS power abort). The PC voltages and QPS Ures signals revealed the presence of voltage spikes with a period of 10~s...

  19. Comparing dynamical systems concepts and techniques for biomechanical analysis

    Institute of Scientific and Technical Information of China (English)

    Richard E.A. van Emmerik; Scott W. Ducharme; Avelino C. Amado; Joseph Hamill

    2016-01-01

    Traditional biomechanical analyses of human movement are generally derived from linear mathematics. While these methods can be useful in many situations, they do not describe behaviors in human systems that are predominately nonlinear. For this reason, nonlinear analysis methods based on a dynamical systems approach have become more prevalent in recent literature. These analysis techniques have provided new insights into how systems (1) maintain pattern stability, (2) transition into new states, and (3) are governed by short-and long-term (fractal) correlational processes at different spatio-temporal scales. These different aspects of system dynamics are typically investigated using concepts related to variability, stability, complexity, and adaptability. The purpose of this paper is to compare and contrast these different concepts and demonstrate that, although related, these terms represent fundamentally different aspects of system dynamics. In particular, we argue that variability should not uniformly be equated with stability or complexity of movement. In addition, current dynamic stability measures based on nonlinear analysis methods (such as the finite maximal Lyapunov exponent) can reveal local instabilities in movement dynamics, but the degree to which these local instabilities relate to global postural and gait stability and the ability to resist external perturbations remains to be explored. Finally, systematic studies are needed to relate observed reductions in complexity with aging and disease to the adaptive capabilities of the movement system and how complexity changes as a function of different task constraints.

  20. White matter degeneration in schizophrenia: a comparative diffusion tensor analysis

    Science.gov (United States)

    Ingalhalikar, Madhura A.; Andreasen, Nancy C.; Kim, Jinsuh; Alexander, Andrew L.; Magnotta, Vincent A.

    2010-03-01

    Schizophrenia is a serious and disabling mental disorder. Diffusion tensor imaging (DTI) studies performed on schizophrenia have demonstrated white matter degeneration either due to loss of myelination or deterioration of fiber tracts although the areas where the changes occur are variable across studies. Most of the population based studies analyze the changes in schizophrenia using scalar indices computed from the diffusion tensor such as fractional anisotropy (FA) and relative anisotropy (RA). The scalar measures may not capture the complete information from the diffusion tensor. In this paper we have applied the RADTI method on a group of 9 controls and 9 patients with schizophrenia. The RADTI method converts the tensors to log-Euclidean space where a linear regression model is applied and hypothesis testing is performed between the control and patient groups. Results show that there is a significant difference in the anisotropy between patients and controls especially in the parts of forceps minor, superior corona radiata, anterior limb of internal capsule and genu of corpus callosum. To check if the tensor analysis gives a better idea of the changes in anisotropy, we compared the results with voxelwise FA analysis as well as voxelwise geodesic anisotropy (GA) analysis.

  1. Multivariate Comparative Analysis of Stock Exchanges: The European Perspective

    Science.gov (United States)

    Koralun-Bereźnicka, Julia

    The aim of the research is to perform a multivariate comparative analysis of 20 European stock exchanges in order to identify the main similarities between the objects. Due to the convergence process of capital markets in Europe the similarities between stock exchanges could be expected to increase over time. The research is meant to show whether and how these similarities change. Consequently, the distances between clusters of similar stock exchanges should become less significant, which the analysis also aims at verifying. The basis of comparison is a set of 48 monthly variables from the period January, 2003 to December, 2006. The variables are classified into three categories: size of the market, equity trading and bonds. The paper aims at identifying the clusters of alike stock exchanges and at finding the characteristic features of each of the distinguished groups. The obtained categorization to some extent corresponds with the division of the European Union into “new” and “old” member countries. Clustering method, performed for each quarter separately, also reveals that the classification is fairly stable in time. The factor analysis, which was carried out to reduce the number of variables, reveals three major factors behind the data, which are related with the earlier mentioned categories of variables.

  2. Comparative Proteomic Analysis of Arabidopsis Mature Pollen and Germinated Pollen

    Institute of Scientific and Technical Information of China (English)

    Junjie Zou; Lianfen Song; Wenzheng Zhang; Yi Wang; Songlin Ruan; Wei-Hua Wu

    2009-01-01

    Proteomic analysis was applied to generating the map of Arabidopsis mature pollen proteins and analyzing the differentially expressed proteins that are potentially involved in the regulation of Arabidopsis pollen germination. By applying 2-D electrophoresis and silver staining, we resolved 499 and 494 protein spots from protein samples extracted from pollen grains and pollen tubes, respectively. Using the matrix-assisted laser desorption ionization time-of-flight mass spectrometry method, we identified 189 distinct proteins from 213 protein spots expressed in mature pollen or pollen tubes, and 75 new identified proteins that had not been reported before in research into the Arabidopsis pollen proteome. Comparative analysis revealed that 40 protein spots exhibit reproducible significant changes between mature pollen and pollen tubes. And 21 proteins from 17 downregulated and six upregulated protein spots were identified. Functional category analysis indicated that these differentially expressed proteins mainly involved in signaling, cellular structure, transport, defense/stress responses, transcription, metabolism, and energy production. The patterns of changes at protein level suggested the important roles for energy metabolism-related proteins in pollen tube growth, accompanied by the activation of the stress response pathway and modifications to the cell wall.

  3. Rice fortification: a comparative analysis in mandated settings.

    Science.gov (United States)

    Forsman, Carmen; Milani, Peiman; Schondebare, Jill A; Matthias, Dipika; Guyondet, Christophe

    2014-09-01

    Legal mandates can play an important role in the success of rice fortification programs that involve the private sector. However, merely enacting mandatory legislation does not guarantee success; it requires a coordinated, multidimensional cross-sector effort that addresses stewardship, develops an appropriate rice fortification technology, enables sustainable production and distribution channels through a range of private-sector players, ensures quality, generates consumer demand, and monitors progress. Furthermore, economic sustainability must be built into the supply chain and distribution network to enable the program to outlast government administrations and/or time-limited funding. Hence, mandates can serve as valuable long-term enablers of cross-sector mobilization and collaboration and as catalysts of civil society engagement in and ownership of fortification programs. This paper compares the rice fortification experiences of Costa Rica and the Philippines--two countries with mandates, yet distinctly different industry landscapes. Costa Rica has achieved national success through strong government stewardship and active market development--key elements of success regardless of industry structure. With a comparatively more diffuse rice industry structure, the Philippines has also had success in limited geographies where key stakeholders have played an active role in market development. A comparative analysis provides lessons that may be relevant to other rice fortification programs.

  4. Comparative Analysis for Robust Penalized Spline Smoothing Methods

    Directory of Open Access Journals (Sweden)

    Bin Wang

    2014-01-01

    Full Text Available Smoothing noisy data is commonly encountered in engineering domain, and currently robust penalized regression spline models are perceived to be the most promising methods for coping with this issue, due to their flexibilities in capturing the nonlinear trends in the data and effectively alleviating the disturbance from the outliers. Against such a background, this paper conducts a thoroughly comparative analysis of two popular robust smoothing techniques, the M-type estimator and S-estimation for penalized regression splines, both of which are reelaborated starting from their origins, with their derivation process reformulated and the corresponding algorithms reorganized under a unified framework. Performances of these two estimators are thoroughly evaluated from the aspects of fitting accuracy, robustness, and execution time upon the MATLAB platform. Elaborately comparative experiments demonstrate that robust penalized spline smoothing methods possess the capability of resistance to the noise effect compared with the nonrobust penalized LS spline regression method. Furthermore, the M-estimator exerts stable performance only for the observations with moderate perturbation error, whereas the S-estimator behaves fairly well even for heavily contaminated observations, but consuming more execution time. These findings can be served as guidance to the selection of appropriate approach for smoothing the noisy data.

  5. Waiting time distribution in M/D/1 queueing systems

    DEFF Research Database (Denmark)

    Iversen, Villy Bæk; Staalhagen, Lars

    1999-01-01

    The well-known formula for the waiting time distribution of M/D/1 queueing systems is numerically unsuitable when the load is close to 1.0 and/or the results for a large waiting time are required. An algorithm for any load and waiting time is presented, based on the state probabilities of M/D/1...

  6. BI MD studies on August 25th 2011

    CERN Document Server

    Belohrad, D; Boccardi, A; Calvo, E; Dehning, B; Favier, M; Emery, J; Guerrero, A; Lefevre, T; Gras, JJ; Jeff, A; Soby, L; Rabiller, A; Roncarolo, F; Sapinski, M; Steinhagen, R; Mateo, CM

    2011-01-01

    This note contains the preliminary results of the LHC MD that took place on 25-Aug-2011 (from 5 a.m. to 1 p.m.), dedicated to study Beam Loss Monitors (BLM), Wire Scanners (WS), Synchrotron Radiation (BSRT), Beam Position Monitors (BPM), and Beam Gas Ionization (BGI) monitors. The MD aimed at performing different studies on the individual monitors.

  7. MD5密码极速爆破

    Institute of Scientific and Technical Information of China (English)

    飘零雪

    2009-01-01

    MD5加密技术对我们来说并不陌生,通过MD5值可以校验下载软件的安全性,而且在很多系统中,用户的密码是以MD5值的方式保存的,用户登录时系统是把用户输入的密码计算成MD5值,然后再去和系统中保存的MD5值进行比较,以验证该用户的合法性。MD5值虽看似很安全,但也并非无懈可击,使用“超速md5破解工具”即可简单快捷地尝试解密MD5。

  8. Single-block collision attack on MD5

    NARCIS (Netherlands)

    Stevens, M.M.J.

    2012-01-01

    In 2010, Tao Xie and Dengguo Feng \\cite{cryptoeprint:2010:643} constructed the first single-block collision for MD5 consisting of two 64-byte messages that have the same MD5 hash. Details of their attack, developed using what they call an evolutionary approach, has not been disclosed ``for security

  9. Chosen-Prefix Collisions for MD5 and Applications

    NARCIS (Netherlands)

    Stevens, M.M.J.; Lenstra, A.K.; Weger, B. de

    2012-01-01

    We present a novel, automated way to find differential paths for MD5. Its main application is in the construction of \\emph{chosen-prefix collisions}. We have shown how, at an approximate expected cost of $2^{39}$ calls to the MD5 compression function, for any two chosen message prefixes $P$ and $P'$

  10. 33 CFR 110.72 - Blackhole Creek, Md.

    Science.gov (United States)

    2010-07-01

    ... 33 Navigation and Navigable Waters 1 2010-07-01 2010-07-01 false Blackhole Creek, Md. 110.72... ANCHORAGE REGULATIONS Special Anchorage Areas § 110.72 Blackhole Creek, Md. The waters on the west side of Blackhole Creek, a tributary of Magothy River, southwest of a line bearing 310°30′ from the most...

  11. An example of qualitative comparative analysis in nursing research.

    Science.gov (United States)

    Donnelly, Frank; Wiechula, Richard

    2013-07-01

    To describe an example of qualitative comparative analysis (QCA) in a study about the role of clinical placement, nursing education and patient outcomes. Clinical placement is often considered an essential aspect of nursing education and an invaluable way to prepare students for the reality of nursing. However, many questions about the role of clinical placement remain unanswered, such as duration, style and learning outcomes. QCA is a novel approach to data analysis, which has been used for some time in social science research, and may be useful in tackling such questions. Participants (n= 16) involved in a case study using questionnaire, in-depth interview and document analysis. Few examples of QCA exist in nursing-related research. Examination of approaches to social sciences and educational research, and the conditions that influence nursing education and clinical placement were conducted via a number of online database searches. The paper presents an example of how QCA was used to consider whether there is any causal relationship between certain features of clinical placement, such as duration, level of preparation, level of benefit, and the capacity of recently graduated registered nurses to provide a range of nursing interventions for pneumonia, falls and pressure-area care. Effective and contemporary curriculum design requires examination of the components of clinical placement that influence graduates and their learning, particularly important at a time when access to the clinical placement setting is becoming increasingly difficult. This paper should stimulate nurse researchers to consider the potential for QCA and case study in addressing many of the complex questions that lend themselves to research designs with small numbers of participants. This paper will be of interest to nurse researchers looking for innovative approaches to data analysis and educators responsible for curriculum design and the delivery of clinical placement experience. A greater

  12. Screening of UV-B-induced genes from apple peels by SSH: possible involvement of MdCOP1-mediated signaling cascade genes in anthocyanin accumulation.

    Science.gov (United States)

    Peng, Ting; Saito, Takanori; Honda, Chikako; Ban, Yusuke; Kondo, Satoru; Liu, Ji-Hong; Hatsuyama, Yoshimichi; Moriguchi, Takaya

    2013-07-01

    Suppression subtractive hybridization (SSH) was employed to identify candidate genes involved in red coloration in apple peel with the ultraviolet (UV)-B-treated 'Mutsu'. After reverse Northern blotting verification, nearly 80 clones were successfully sequenced. Large portions of the expressed sequence tags (ESTs) are well characterized anthocyanin biosynthesis-related genes, such as chalcone synthase (11A5), flavonol synthase (12F3), anthocyanidin synthase (11H5) and UDP-glycosyl transferase (14A12) whose presence proved the success of SSH. Eight ESTs were selected for quantitative real-time polymerase chain reaction analysis and their expressions were all elevated in 'Induction', further confirming the reliability of the SSH library. One EST, 11F4 (CONSTITUTIVE PHOTOMORPHOGENIC 1: COP1) with putative function in light signal relay was further analyzed in 'Mutsu' and 'Tsugaru', along with MdHY5 (ELONGATED HYPOCOTYL 5: the downstream target of COP1), MdMYB22 (a possible flavonol-specific activator under the regulation of HY5, belonging to the SG7/PRODUCTION OF FLAVONOL GLYCOSIDES family) and MdMYBA. Results showed that MdCOP1, MdHY5, MdMYB22 and MdMYBA were all UV-B inducible genes and anthocyanin accumulation occurred after their increased expressions. Moreover, their expressions and anthocyanin content were enhanced under UV-B plus 17°C treatment. The presence of G box, a known consensus binding site of HY5, in the MdMYBA promoter region implicated that it could be regulated by MdHY5, which was verified by the result of the yeast one-hybrid analysis. Our data suggested that UV-B irradiation would induce the utmost upstream light signaling factor, MdCOP1, which activates MdHY5 signaling by binding to the promoter regions of MdMYBs, and finally leads to the red coloration of apple peels.

  13. Comparative Genomics and Transcriptomic Analysis of Mycobacterium Kansasii

    KAUST Repository

    Alzahid, Yara

    2014-04-01

    The group of Mycobacteria is one of the most intensively studied bacterial taxa, as they cause the two historical and worldwide known diseases: leprosy and tuberculosis. Mycobacteria not identified as tuberculosis or leprosy complex, have been referred to by ‘environmental mycobacteria’ or ‘Nontuberculous mycobacteria (NTM). Mycobacterium kansasii (M. kansasii) is one of the most frequent NTM pathogens, as it causes pulmonary disease in immuno-competent patients and pulmonary, and disseminated disease in patients with various immuno-deficiencies. There have been five documented subtypes of this bacterium, by different molecular typing methods, showing that type I causes tuberculosis-like disease in healthy individuals, and type II in immune-compromised individuals. The remaining types are said to be environmental, thereby, not causing any diseases. The aim of this project was to conduct a comparative genomic study of M. kansasii types I-V and investigating the gene expression level of those types. From various comparative genomics analysis, provided genomics evidence on why M. kansasii type I is considered pathogenic, by focusing on three key elements that are involved in virulence of Mycobacteria: ESX secretion system, Phospholipase c (plcb) and Mammalian cell entry (Mce) operons. The results showed the lack of the espA operon in types II-V, which renders the ESX- 1 operon dysfunctional, as espA is one of the key factors that control this secretion system. However, gene expression analysis showed this operon to be deleted in types II, III and IV. Furthermore, plcB was found to be truncated in types III and IV. Analysis of Mce operons (1-4) show that mce-1 operon is duplicated, mce-2 is absent and mce-3 and mce-4 is present in one copy in M. kansasii types I-V. Gene expression profiles of type I-IV, showed that the secreted proteins of ESX-1 were slightly upregulated in types II-IV when compared to type I and the secreted forms of ESX-5 were highly down

  14. Comprehensive comparative analysis of kinesins in photosynthetic eukaryotes

    Directory of Open Access Journals (Sweden)

    Reddy Anireddy SN

    2006-01-01

    Full Text Available Abstract Background Kinesins, a superfamily of molecular motors, use microtubules as tracks and transport diverse cellular cargoes. All kinesins contain a highly conserved ~350 amino acid motor domain. Previous analysis of the completed genome sequence of one flowering plant (Arabidopsis has resulted in identification of 61 kinesins. The recent completion of genome sequencing of several photosynthetic and non-photosynthetic eukaryotes that belong to divergent lineages offers a unique opportunity to conduct a comprehensive comparative analysis of kinesins in plant and non-plant systems and infer their evolutionary relationships. Results We used the kinesin motor domain to identify kinesins in the completed genome sequences of 19 species, including 13 newly sequenced genomes. Among the newly analyzed genomes, six represent photosynthetic eukaryotes. A total of 529 kinesins was used to perform comprehensive analysis of kinesins and to construct gene trees using the Bayesian and parsimony approaches. The previously recognized 14 families of kinesins are resolved as distinct lineages in our inferred gene tree. At least three of the 14 kinesin families are not represented in flowering plants. Chlamydomonas, a green alga that is part of the lineage that includes land plants, has at least nine of the 14 known kinesin families. Seven of ten families present in flowering plants are represented in Chlamydomonas, indicating that these families were retained in both the flowering-plant and green algae lineages. Conclusion The increase in the number of kinesins in flowering plants is due to vast expansion of the Kinesin-14 and Kinesin-7 families. The Kinesin-14 family, which typically contains a C-terminal motor, has many plant kinesins that have the motor domain at the N terminus, in the middle, or the C terminus. Several domains in kinesins are present exclusively either in plant or animal lineages. Addition of novel domains to kinesins in lineage

  15. Primate phylogeny studied by comparative determinant analysis. A preliminary report.

    Science.gov (United States)

    Bauer, K

    1993-01-01

    In this preliminary report the divergence times for the major primate groups are given, calculated from a study by comparative determinant analysis of 69 proteins (equaling 0.1% of the whole genetic information). With an origin of the primate order set at 80 million years before present, the ages of the last common ancestors (LCAs) of man and the major primate groups obtained this way are as follows: Pan troglodytes 5.2; Gorilla gorilla 7.4; Pongo pygmaeus 19.2; Hylobates lar 20.3; Old World monkeys 31.4; Lagothrix lagotricha 46.0; Cebus albifrons 59.5; three lemur species 67.0, and Galago crassicaudatus 73.3 million years. The LCA results and the approach are shortly discussed. A full account of this extended investigation including results on nonprimate mammals and on the determinant structures and the immunologically derived evolutionary rates of the proteins analyzed will be published elsewhere.

  16. A COMPARATIVE ANALYSIS OF DISPUTE RESOLUTION DYNAMICS IN ASIA

    Directory of Open Access Journals (Sweden)

    Pawel Voronin

    2014-01-01

    Full Text Available China’s rise to prominence in the international community following the end of the Cold War, the growth in economic power and population numbers project that China will become the leading world power within several decades, regardless of the course its government takes. The article aimes to contribute to answering the question whether this rise will be peaceful through a comparative analysis of resolved and unresolved territorial disputes between China and groups of neighbouring states between 1986 and 2013. While previous studies have focused rather exclusively on Chinese behaviour, this text will examine both sides of the dispute and the behavior of the parties in light of regional dynamics. 

  17. Comparative dynamic analysis of the full Grossman model.

    Science.gov (United States)

    Ried, W

    1998-08-01

    The paper applies the method of comparative dynamic analysis to the full Grossman model. For a particular class of solutions, it derives the equations implicitly defining the complete trajectories of the endogenous variables. Relying on the concept of Frisch decision functions, the impact of any parametric change on an endogenous variable can be decomposed into a direct and an indirect effect. The focus of the paper is on marginal changes in the rate of health capital depreciation. It also analyses the impact of either initial financial wealth or the initial stock of health capital. While the direction of most effects remains ambiguous in the full model, the assumption of a zero consumption benefit of health is sufficient to obtain a definite for any direct or indirect effect.

  18. Cytogenetic analysis from DNA by comparative genomic hybridization.

    Science.gov (United States)

    Tachdjian, G; Aboura, A; Lapierre, J M; Viguié, F

    2000-01-01

    Comparative genomic hybridization (CGH) is a modified in situ hybridization technique which allows detection and mapping of DNA sequence copy differences between two genomes in a single experiment. In CGH analysis, two differentially labelled genomic DNA (study and reference) are co-hybridized to normal metaphase spreads. Chromosomal locations of copy number changes in the DNA segments of the study genome are revealed by a variable fluorescence intensity ratio along each target chromosome. Since its development, CGH has been applied mostly as a research tool in the field of cancer cytogenetics to identify genetic changes in many previously unknown regions. CGH may also have a role in clinical cytogenetics for detection and identification of unbalanced chromosomal abnormalities.

  19. Phylogeny and comparative genome analysis of a Basidiomycete fungi

    Energy Technology Data Exchange (ETDEWEB)

    Riley, Robert W.; Salamov, Asaf; Grigoriev, Igor; Hibbett, David

    2011-03-14

    Fungi of the phylum Basidiomycota, make up some 37percent of the described fungi, and are important from the perspectives of forestry, agriculture, medicine, and bioenergy. This diverse phylum includes the mushrooms, wood rots, plant pathogenic rusts and smuts, and some human pathogens. To better understand these important fungi, we have undertaken a comparative genomic analysis of the Basidiomycetes with available sequenced genomes. We report a phylogeny that sheds light on previously unclear evolutionary relationships among the Basidiomycetes. We also define a `core proteome? based on protein families conserved in all Basidiomycetes. We identify key expansions and contractions in protein families that may be responsible for the degradation of plant biomass such as cellulose, hemicellulose, and lignin. Finally, we speculate as to the genomic changes that drove such expansions and contractions.

  20. COMPARATIVE ANALYSIS OF VAT EVOLUTION IN THE EUROPEAN ECONOMIC SYSTEM

    Directory of Open Access Journals (Sweden)

    MIHAELA ANDREEA STROE

    2011-04-01

    Full Text Available In this paper we study a comparative analysis of VAT in different states of the world. I made some observation on this theme because I believe that VAT is very important in carrying out transactions and the increase or decrease of this tax has a major impact upon national economies and also on the quality of life in developing countries. The papers has to pourpose to make a comparison between the American and European system of taxation with its advantages and disadvantages and, in the end to render an economic model and its statistics components. VAT is a value added tax which appeared about 50 years, initially with two purposes: one to replace certain indirect taxes, and another to reduce the budget deficit according to the faith of that time. The first country that has adopted this model was France, calling it today as value-added tax.

  1. COMPARATIVE ANALYSIS OF VAT EVOLUTION IN THE EUROPEAN ECONOMIC SYSTEM

    Directory of Open Access Journals (Sweden)

    Mihaela Andreea STROE

    2011-08-01

    Full Text Available In this paper we study a comparative analysis of VAT in different states of the world. I made some observation on this theme because I believe that VAT is very important in carrying out transactions and the increase or decrease of this tax has a major impact upon national economies and also on the quality of life in developing countries. The papers has to pourpose to make a comparison between the American and European system of taxation with its advantages and disadvantages and, in the end to render an economic model and its statistics components. VAT is a value added tax which appeared about 50 years, initially with two purposes: one to replace certain indirect taxes, and another to reduce the budget deficit according to the faith of that time. The first country that has adopted this model was France, calling it today as value-added tax.

  2. Comparative Analysis of Visco-elastic Models with Variable Parameters

    Directory of Open Access Journals (Sweden)

    Silviu Nastac

    2010-01-01

    Full Text Available The paper presents a theoretical comparative study for computational behaviour analysis of vibration isolation elements based on viscous and elastic models with variable parameters. The changing of elastic and viscous parameters can be produced by natural timed evolution demo-tion or by heating developed into the elements during their working cycle. It was supposed both linear and non-linear numerical viscous and elastic models, and their combinations. The results show the impor-tance of numerical model tuning with the real behaviour, as such the characteristics linearity, and the essential parameters for damping and rigidity. Multiple comparisons between linear and non-linear simulation cases dignify the basis of numerical model optimization regarding mathematical complexity vs. results reliability.

  3. A comparative analysis between fuzzy topsis and simplified fuzzy topsis

    Science.gov (United States)

    Ahmad, Sharifah Aniza Sayed; Mohamad, Daud

    2017-08-01

    Fuzzy Multiple Criteria Decision Making plays an important role in solving problems in decision making under fuzzy environment. Among the popular methods used is the fuzzy TOPSIS (Technique for Order Preference by Similarity to Ideal Solution) where the solution is based on the shortest distance from its positive ideal solution and the farthest distance from its negative ideal solution. The fuzzy TOPSIS method was first introduced by Chen (2000). At present, there are several variants of fuzzy TOPSIS methods and each of them claimed to have its own advantages. In this paper, a comparative analysis is made between the classical fuzzy TOPSIS method proposed by Chen in 2000 and the simplified fuzzy TOPSIS proposed by Sodhi in 2012. The purpose of this study is to show the similarities and the differences between these two methods and also elaborate on their strengths and limitations as well. A comparison is also made by providing numerical examples of both methods.

  4. Comparative analysis of existing models for power-grid synchronization

    CERN Document Server

    Nishikawa, Takashi

    2015-01-01

    The dynamics of power-grid networks is becoming an increasingly active area of research within the physics and network science communities. The results from such studies are typically insightful and illustrative, but are often based on simplifying assumptions that can be either difficult to assess or not fully justified for realistic applications. Here we perform a comprehensive comparative analysis of three leading models recently used to study synchronization dynamics in power-grid networks -- a fundamental problem of practical significance given that frequency synchronization of all power generators in the same interconnection is a necessary condition for a power grid to operate. We show that each of these models can be derived from first principles within a common framework based on the classical model of a generator, thereby clarifying all assumptions involved. This framework allows us to view power grids as complex networks of coupled second-order phase oscillators with both forcing and damping terms. U...

  5. Demographic changes in towns of Central Serbia: Comparative analysis

    Directory of Open Access Journals (Sweden)

    Filipović Marko

    2007-01-01

    Full Text Available Due to intensive urbanization, Central Serbia's urban population reached almost 60% in the total population. Despite the fact that the urban residents share in Serbia is still bellow the level of urbanization in developed countries, in which the percentage of urban residents exudes 70% (in majority of cases even more than 80%, it is an impression that demographic "resources" of rural areas have bean rather exhausted and that all demographic revitalization potential of Central Serbia is concentrated in towns. This paper treats the demographic changes which encompassed the towns of Central Serbia since 1981 census onwards, with special emphasis on the population migrations as well as on the natural growth, i.e. age - gender structure formation featuring the towns of Central Serbia. The changes will be analyzed trough a comparative analysis at the level of small, medium sized towns and big cities, while Belgrade will be represent as a special category.

  6. Comparative Analysis of Congestion Control Algorithms Using ns-2

    CERN Document Server

    Patel, Sanjeev; Garg, Arjun; Mehrotra, Prateek; Chhabra, Manish

    2012-01-01

    In order to curtail the escalating packet loss rates caused by an exponential increase in network traffic, active queue management techniques such as Random Early Detection (RED) have come into picture. Flow Random Early Drop (FRED) keeps state based on instantaneous queue occupancy of a given flow. FRED protects fragile flows by deterministically accepting flows from low bandwidth connections and fixes several shortcomings of RED by computing queue length during both arrival and departure of the packet. Stochastic Fair Queuing (SFQ) ensures fair access to network resources and prevents a busty flow from consuming more than its fair share. In case of (Random Exponential Marking) REM, the key idea is to decouple congestion measure from performance measure (loss, queue length or delay). Stabilized RED (SRED) is another approach of detecting nonresponsive flows. In this paper, we have shown a comparative analysis of throughput, delay and queue length for the various congestion control algorithms RED, SFQ and REM...

  7. Comparative Analysis of Fuzzy Inference Systems for Air Conditioner

    Directory of Open Access Journals (Sweden)

    Swati R. Chaudhari

    2014-12-01

    Full Text Available In today’s world there is exponential increase in the use of air conditioning devices. The enhancement in utilization of such devices makes it essential for them to work with their full capability and efficiency. The fuzzy inference systems are best suited for the applications requiring easy interpretation, human reasoning, accurate decision making and control. The fuzzy inference systems resemble human decision making and generate precise solutions from approximate information. A comprehensive review of fuzzy inference systems with weighted average and defuzzification is covered in this paper. The objective of the paper is to provide the comparative analysis of fuzzy inference systems. This paper is a quick reference for the researchers in studying the characteristics of fuzzy inference system in air conditioner.

  8. Comparative Analysis of Splice Site Regions by Information Content

    Institute of Scientific and Technical Information of China (English)

    T. Shashi Rekha; Chanchal K. Mitra

    2006-01-01

    We have applied concepts from information theory for a comparative analysis of donor (gt) and acceptor (ag) splice site regions in the genes of five different organisms by calculating their mutual information content (relative entropy) over a selected block of nucleotides. A similar pattern that the information content decreases as the block size increases was observed for both regions in all the organisms studied. This result suggests that the information required for splicing might be contained in the consensus of ~6-8 nt at both regions. We assume from our study that even though the nucleotides are showing some degrees of conservation in the flanking regions of the splice sites, certain level of variability is still tolerated,which leads the splicing process to occur normally even if the extent of base pairing is not fully satisfied. We also suggest that this variability can be compensated by recognizing different splice sites with different spliceosomal factors.

  9. COMPARATIVE ANALYSIS OF PERFORMANCE CHARACTERISTICS OF JET VORTEX TYPE SUPERCHAGES

    Directory of Open Access Journals (Sweden)

    A. Rogovyi

    2016-06-01

    Full Text Available On the basis of mathematical modeling there was carried out a comparative analysis of characteristics of jet vortex type superchargers. Dependences of the energy performance of vortex ejector on the geometry parameters and the largest values in terms of efficiency as well as the coefficient of ejection are analyzed. There were built combined characteristics of vortex chamber pumps and vortex ejectors. Vortex chamber pump has advantage pressure in an exit channel over the vortex ejector, consequently there is a more effective power transmission from a working medium, besides the withdrawal of pumping medium in a tangential channel allows to avoid energy losses owing to rotation of a stream in an exit channel.

  10. Comparative Analysis of Routing Attacks in Ad Hoc Network

    Directory of Open Access Journals (Sweden)

    Bipul Syam Purkayastha

    2012-03-01

    Full Text Available In the mobile ad hoc networks the major role is played by the routing protocols in order to route the data from one mobile node to another mobile node. But in such mobile networks, routing protocols are vulnerable to various kinds of security attacks such as blackhole node attacks. The routing protocols of MANET are unprotected and hence resulted into the network with the malicious mobile nodes in the network. These malicious nodes in the network are basically acts as attacks in the network. In this paper, we modify the existing DSR protocol with the functionality of attacks detection without affecting overall performance of the network. Also, we are considering the various attacks on mobile ad hoc network called blackhole attack, flooding attack and show the comparative analysis of these attacks using network simulator ns-2.

  11. Comparative analysis of discrete exosome fractions obtained by differential centrifugation

    DEFF Research Database (Denmark)

    Jeppesen, Dennis Kjølhede; Hvam, Michael L; Primdahl-Bengtson, Bjarke

    2014-01-01

    BACKGROUND: Cells release a mixture of extracellular vesicles, amongst these exosomes, that differ in size, density and composition. The standard isolation method for exosomes is centrifugation of fluid samples, typically at 100,000×g or above. Knowledge of the effect of discrete...... ultracentrifugation speeds on the purification from different cell types, however, is limited. METHODS: We examined the effect of applying differential centrifugation g-forces ranging from 33,000×g to 200,000×g on exosome yield and purity, using 2 unrelated human cell lines, embryonic kidney HEK293 cells and bladder...... of phenol red and cleared by 200,000×g overnight centrifugation. The centrifugation tube fill level impacted the sedimentation efficacy. Comparative analysis by NTA, protein quantification, and detection of exosomal and contamination markers identified differences in vesicle size, concentration...

  12. Imaging hydrated microbial extracellular polymers: Comparative analysis by electron microscopy

    Energy Technology Data Exchange (ETDEWEB)

    Dohnalkova, A.C.; Marshall, M. J.; Arey, B. W.; Williams, K. H.; Buck, E. C.; Fredrickson, J. K.

    2011-01-01

    Microbe-mineral and -metal interactions represent a major intersection between the biosphere and geosphere but require high-resolution imaging and analytical tools for investigating microscale associations. Electron microscopy has been used extensively for geomicrobial investigations and although used bona fide, the traditional methods of sample preparation do not preserve the native morphology of microbiological components, especially extracellular polymers. Herein, we present a direct comparative analysis of microbial interactions using conventional electron microscopy approaches of imaging at room temperature and a suite of cryogenic electron microscopy methods providing imaging in the close-to-natural hydrated state. In situ, we observed an irreversible transformation of the hydrated bacterial extracellular polymers during the traditional dehydration-based sample preparation that resulted in their collapse into filamentous structures. Dehydration-induced polymer collapse can lead to inaccurate spatial relationships and hence could subsequently affect conclusions regarding nature of interactions between microbial extracellular polymers and their environment.

  13. Comparative Traffic Performance Analysis of Urban Transportation Network Structures

    CERN Document Server

    Amini, Behnam; Mojarradi, Morteza; Derrible, Sybil

    2015-01-01

    The network structure of an urban transportation system has a significant impact on its traffic performance. This study uses network indicators along with several traffic performance measures including speed, trip length, travel time, and traffic volume, to compare a selection of seven transportation networks with a variety of structures and under different travel demand conditions. The selected network structures are: modified linear, branch, grid, 3-directional grid, 1-ring web, 2-ring web, and radial. For the analysis, a base origin-destination matrix is chosen, to which different growth factors are applied in order to simulate various travel demand conditions. Results show that overall the 2-ring web network offers the most efficient traffic performance, followed by the grid and the 1-ring networks. A policy application of this study is that the branch, 3-directional grid, and radial networks are mostly suited for small cities with uncongested traffic conditions. In contrast, the 2-ring web, grid, and 1-r...

  14. A comparative analysis of academic dissertation management systems in China

    Institute of Scientific and Technical Information of China (English)

    GAO; Min; JIN; Yuling; WANG; Zhengjun; DAI; Yumei; WANG; Ruiyun

    2010-01-01

    The paper is to do a comparative evaluation on the four major digital theses and dissertations management systems used in the mainland China,which are TRS,TPI,TASi and IDL-ETD.The evaluation analysis is primarily based on the systematic tests on these systems conducted by DUT(Dalian University of Technology)Library.Special focuses are on the distinctive features of each system such as their performance in terms of stability,reliability,openness,capacity of backdating,copyright protection,service monitoring,document conversion and release automation,log management,statistical tabulations,vendor’s technical support and so on.In addition,authors provide a statistics on the choice of academic dissertation system of most 985a)colleges and universities in China.

  15. Comparative analysis of the biochemistry undergraduate courses in Brazil

    Directory of Open Access Journals (Sweden)

    P. A. Granjeiro

    2014-08-01

    Full Text Available INTRODUCTION: The economic and social development of Brazil during the recent decades has contributed to the installation of several new undergraduate and graduate study programs, as is the case of the undergraduate biochemistry programs at UFV, UFSJ and UEM. The new biochemical professionals are being prepared to work mainly in Industries, research Institutes, government agencies and Universities in all fields that involve Biochemistry and Molecular Biology. The aim of this study was to conduct a comparative analysis of the courses in Biochemistry in Brazil. MATERIAL AND METHODS: Comparative analysis of the course units of the UFV, UFSJ and UEM programs, centered on the curricula contents and organization and on the profiles of the students in terms of parameters such as the number of admissions and the graduation completion rates. RESULTS AND DISCUSSION: The UFV and UEM programs present a very similar distribution of workload over the biological, exact sciences, humanities, biochemical specialties and technological applications. The UFSJ program presents higher workloads in the areas of biological sciences and technological applications. No significant differences in the distribution of the workloads of mandatory and optional disciplines, complementary activities and supervised activities were detected. Over the past five years there was a decrease in the number of students that abandoned the programs, despite the increased retention time in the three courses. Most graduated students at both UFV and UFSJ continue their academic career toward the Master or Doctor degrees. CONCLUSION: Little difference between the study programs analyzed. This is somewhat surprising if one considers the fact that individual conception of each program was based on different local conditions and needs, which indeed justify small differences. The similarity of the programs, on the other hand, reflects the universality of the biochemical sciences and their broad

  16. Comparative expression pathway analysis of human and canine mammary tumors

    Directory of Open Access Journals (Sweden)

    Marconato Laura

    2009-03-01

    Full Text Available Abstract Background Spontaneous tumors in dog have been demonstrated to share many features with their human counterparts, including relevant molecular targets, histological appearance, genetics, biological behavior and response to conventional treatments. Mammary tumors in dog therefore provide an attractive alternative to more classical mouse models, such as transgenics or xenografts, where the tumour is artificially induced. To assess the extent to which dog tumors represent clinically significant human phenotypes, we performed the first genome-wide comparative analysis of transcriptional changes occurring in mammary tumors of the two species, with particular focus on the molecular pathways involved. Results We analyzed human and dog gene expression data derived from both tumor and normal mammary samples. By analyzing the expression levels of about ten thousand dog/human orthologous genes we observed a significant overlap of genes deregulated in the mammary tumor samples, as compared to their normal counterparts. Pathway analysis of gene expression data revealed a great degree of similarity in the perturbation of many cancer-related pathways, including the 'PI3K/AKT', 'KRAS', 'PTEN', 'WNT-beta catenin' and 'MAPK cascade'. Moreover, we show that the transcriptional relationships between different gene signatures observed in human breast cancer are largely maintained in the canine model, suggesting a close interspecies similarity in the network of cancer signalling circuitries. Conclusion Our data confirm and further strengthen the value of the canine mammary cancer model and open up new perspectives for the evaluation of novel cancer therapeutics and the development of prognostic and diagnostic biomarkers to be used in clinical studies.

  17. Extreme storm surges: a comparative study of frequency analysis approaches

    Directory of Open Access Journals (Sweden)

    Y. Hamdi

    2013-11-01

    Full Text Available In France, nuclear facilities were designed to very low probabilities of failure. Nevertheless, exceptional climatic events have given rise to surges much larger than observations (outliers and had clearly illustrated the potential to underestimate the extreme water levels calculated with the current statistical methods. The objective of the present work is to conduct a comparative study of three approaches including the Annual Maxima (AM, the Peaks-Over Threshold (POT and the r-Largest Order Statistics (r-LOS. These methods are illustrated in a real analysis case study. All the data sets were screened for outliers. Non-parametric tests for randomness, homogeneity and stationarity of time series were used. The shape and scale parameters stability plots, the mean excess residual life plot and the stability of the standard errors of return levels were used to select optimal thresholds and r values for the POT and r-LOS method, respectively. The comparison of methods was based on: (i the uncertainty degrees, (ii the adequacy criteria and tests and (iii the visual inspection. It was found that the r-LOS and POT methods have reduced the uncertainty on the distributions parameters and return level estimates and have systematically shown values of the 100 and 500 yr return levels smaller than those estimated with the AM method. Results have also shown that none of the compared methods has allowed a good fitting at the right tail of the distribution in the presence of outliers. As a perspective, the use of historical information was proposed in order to increase the representativity of outliers in data sets. Findings are of practical relevance not only to nuclear energy operators in France, for applications in storm surge hazard analysis and flood management, but also for the optimal planning and design of facilities to withstand extreme environmental conditions, with an appropriate level of risk.

  18. A comparative analysis of Chikungunya and Zika transmission

    Directory of Open Access Journals (Sweden)

    Julien Riou

    2017-06-01

    Full Text Available The recent global dissemination of Chikungunya and Zika has fostered public health concern worldwide. To better understand the drivers of transmission of these two arboviral diseases, we propose a joint analysis of Chikungunya and Zika epidemics in the same territories, taking into account the common epidemiological features of the epidemics: transmitted by the same vector, in the same environments, and observed by the same surveillance systems. We analyse eighteen outbreaks in French Polynesia and the French West Indies using a hierarchical time-dependent SIR model accounting for the effect of virus, location and weather on transmission, and based on a disease specific serial interval. We show that Chikungunya and Zika have similar transmission potential in the same territories (transmissibility ratio between Zika and Chikungunya of 1.04 [95% credible interval: 0.97; 1.13], but that detection and reporting rates were different (around 19% for Zika and 40% for Chikungunya. Temperature variations between 22 °C and 29 °C did not alter transmission, but increased precipitation showed a dual effect, first reducing transmission after a two-week delay, then increasing it around five weeks later. The present study provides valuable information for risk assessment and introduces a modelling framework for the comparative analysis of arboviral infections that can be extended to other viruses and territories.

  19. COMPARATIVE ANALYSIS OF GROWTH OF RICE VARIETY BY GROUPS

    Directory of Open Access Journals (Sweden)

    Bruyako V. N.

    2016-03-01

    Full Text Available High growth-rate of plantlet is the integral index of intensity of physiological processes at rice and other cultures. 20 typical plantlets from each of two variants were studded (in the distilled water in thermostat at a temperature 29° C by: length of embryonic root and coleoptile. Comparative analysis of trait characterizing the growth rates of rice varieties showed reliable advantage of Russian ones above the Italian and Chinese. Local varieties, regionalized until the year 2000, exceed new ones on this trait. Highest growth rates were characterized by medium grain samples. The white grain and red grain varieties are excelled other groups on the height of plantlet. Analysis rates of height of plantlets in the distinguished groups showed the necessity of prosecution of improvement of the above enumerated signs at the varieties of late term of ripening, long grain, with Waxy gene, colored grain. We recommend to sow this type of varieties on fields with good leveling, because of low speed of growth

  20. Comparative analysis of methods for genome-wide nucleosome cartography.

    Science.gov (United States)

    Quintales, Luis; Vázquez, Enrique; Antequera, Francisco

    2015-07-01

    Nucleosomes contribute to compacting the genome into the nucleus and regulate the physical access of regulatory proteins to DNA either directly or through the epigenetic modifications of the histone tails. Precise mapping of nucleosome positioning across the genome is, therefore, essential to understanding the genome regulation. In recent years, several experimental protocols have been developed for this purpose that include the enzymatic digestion, chemical cleavage or immunoprecipitation of chromatin followed by next-generation sequencing of the resulting DNA fragments. Here, we compare the performance and resolution of these methods from the initial biochemical steps through the alignment of the millions of short-sequence reads to a reference genome to the final computational analysis to generate genome-wide maps of nucleosome occupancy. Because of the lack of a unified protocol to process data sets obtained through the different approaches, we have developed a new computational tool (NUCwave), which facilitates their analysis, comparison and assessment and will enable researchers to choose the most suitable method for any particular purpose. NUCwave is freely available at http://nucleosome.usal.es/nucwave along with a step-by-step protocol for its use. © The Author 2014. Published by Oxford University Press. For Permissions, please email: journals.permissions@oup.com.

  1. A comparative analysis of national food recall systems

    Directory of Open Access Journals (Sweden)

    Gaetano Liuzzo

    2013-12-01

    Full Text Available Food recall and withdrawal is a fundamental tool for risk management and different countries stated the mandatory application of a system for food; the present work is an analysis of different systems applied in different countries. The main objective of analysed systems is the consumer’s health protection through an audit system and the application of system to rapidly recall/withdraw food on the part of producers. The comparative analysis of different national systems [i.e. European Union (EU, Australia, Canada, US and China] shows differences both of the terminological and legal aspects; the words recall and withdrawal have different meaning in EU legislation than in other counties’ legislations; from a legal point of view, two main recall/withdrawal systems could be identified: a mandatory one (EU and China and a voluntary one (USA, Canada and Australia; all the investigated systems have a co-operative approach between authority and food business operator, but different functions on their respective roles could be identified.

  2. Comparative sequence-structure analysis of Aves insulin.

    Science.gov (United States)

    Islam, Md Mirazul; Aktaruzzaman, M; Mohamed, Zahurin

    2015-01-01

    Normal blood glucose level depends on the availability of insulin and its ability to bind insulin receptor (IR) that regulates the downstream signaling pathway. Insulin sequence and blood glucose level usually vary among animals due to species specificity. The study of genetic variation of insulin, blood glucose level and diabetics symptoms development in Aves is interesting because of its optimal high blood glucose level than mammals. Therefore, it is of interest to study its evolutionary relationship with other mammals using sequence data. Hence, we compiled 32 Aves insulin from GenBank to compare its sequence-structure features with phylogeny for evolutionary inference. The analysis shows long conserved motifs (about 14 residues) for functional inference. These sequences show high leucine content (20%) with high instability index (>40). Amino acid position 11, 14, 16 and 20 are variable that may have contribution to binding to IR. We identified functionally critical variable residues in the dataset for possible genetic implication. Structural models of these sequences were developed for surface analysis towards functional representation. These data find application in the understanding of insulin function across species.

  3. EMERGING ECONOMIES: COMPARATIVE ANALYSIS OF MIST AND IBSA COUNTRIES

    Directory of Open Access Journals (Sweden)

    Gonca Oguz Gok

    2016-04-01

    Full Text Available Post Second World War liberal economic order and its institutions have been challenged with the rapidly growing powerful economies of some Asian and Latin American countries in the last decade. Yet, there is ambiguity in international political economy field with regard to conceptualizing and categorizing these emerging economies. This study mainly aims to ravel out this obstacle by offering a new quantitative benchmarking framework. In other words, this study proposes a new evaluation criteria set for assessing emerging economies with combining testable domestic and systematic factors. Accordingly, this study presents the cross-country comparison by using quantitative benchmarking analysis between IBSA -India, Brazil and South Africa- and MIST -Mexico, Indonesia, South Korea and Turkey- countries over the period 2008- 2012. We compare these countries based on the criteria of economic growth, human development index, foreign direct investment, and official development assistance. This study also aims to evaluate the group performance of these newly emerging economies- namely the rise of IBSA and MIST countries-in a comparative perspective. In conclusion, the performance of these countries -from both group-of-country and individual-country perspectives- are discussed in light of the results

  4. A Comparative Analysis of Chinese and Shona Vowels

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    Herbert Mushangwe

    2013-12-01

    Full Text Available This paper is a comparative analysis between Chinese and Shona vowel system. The research is biased towards helping Chinese language learners whose mother tongue is Shona however it is expected to benefit other researchers interested in comparative researches. The main focus of this research is on the major differences that exist between these two languages, with an aim to predict and combat the possible pronunciation errors that may result from native language transfer. The research findings show that Chinese language’s vowel system is more complex than the Shona vowel system. It is therefore assumed that though Chinese language learners whose mother tongue is Shona language may find it challenging to acquire the Chinese vowel system, however if students are advised in advanced the differences between the Chinese and Shona vowels represented by same letters in the writing systems of these two languages, students are likely to have less pronunciation errors in Chinese since they will not borrow the Shona pronunciation strategies.

  5. THE COMPARATIVE COST-EFFICACY ANALYSIS OF VARIOUS ANTIHYPERTENSIVE THERAPIES

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    S. V. Malchikova

    2016-01-01

    Full Text Available Aim. To perform the comparative cost-efficacy analysis of various antihypertensive therapies in hypertensives patients.Material and methods. 140 hypertensive patients with history of ineffective antihypertensive therapy were randomized in to 4 groups, 35 patients in each one. Patients of Group A received indapamide retard plus perindopril; group B - indapamide retard plus amlodipine; group C - amlodipine plus lisinopril; group D - amlodipine plus bisoprolol. The Russian version of general questionnaire MOS-SF-36 was applied for quality of a life estimated. Endothelium function was evaluated with B-mode ultrasonography (Acuson 128 ХР/10. Albuminuria level was detected by immunoturbometric method (Integra-700, Roche.Results. The drug combination B had the least cost. The drug combination C was the most effective. The drug combination C was the most economically rational. The drug combination A was the least economically rational for BP reduction. However the drug combination A was comparable with drug combination C in effects on quality of life and on endothelium function, and it was the most economically rational for albuminuria reduction.Conclusion. Indapamide retard plus perindopril combination is the most economically rational in patients with target-organ lesions (nephropathy. Lisinopril plus amlodipine combination is economically rational in patients without target-organ lesions. 

  6. Immigration and Muslim Immigrants: A Comparative Analysis of European States

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    Natasha T. Duncan

    2011-10-01

    Full Text Available Immigration policies serve a number of functions for states. Governments may use policies as instruments of foreign policy, economic growth, population growth, and/ or national security. In this post-September 11, 2001 global environment, integration policies have become more assimilationist and immigration restrictions toward nationals from Muslim countries of origin have increased in the name of national security. While this trend is common among many Western states, Britain’s immigration stance toward Muslim migrants remains unchanged. This study examines changes in policies toward immigrants—changes that make these policies de facto immigration policies though they may not have been conceived as such—in the Netherlands, Germany, France, and the absence of this change in the UK. It seeks to answer the question: what explains reforms in the Netherlands, Germany, and France while British immigration policy remained unchanged? In this effort, the article emphasizes the impact of these changes on potential migrants from predominantly Muslim countries of origin. Based on a comparative case study analysis using process tracing, findings indicate that Dutch immigration/integration policy choices influence government policy changes in other West European countries. Through a learning process, governments experiencing similar socio-political challenges observe overlapping societal responses to them and optimize in creating policy alternatives by using short-cuts and adopting policies implemented in comparable states and situations.

  7. A Comparative Analysis of MOOC (Massive Open Online Course Platforms

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    Maria CONACHE

    2016-01-01

    Full Text Available The MOOC platforms have known a considerable development in recent years due to the enlargement of online space and the shifting between traditional to virtual activities. These plat-forms made it possible for people almost everywhere to take online academic courses offered by top universities via open access to web and with unlimited participation. Thus, it came naturally to us to address the question what makes them so successful? The purpose of this paper is to report comparatively MOOC platforms in terms of features, based on the user’s implication and demands. First, we chose four relevant lifelong learning platforms and then we structured three main categories for the platforms' qualification, depending on which we built our theory regarding the comparison between them. Our analysis consists of three sets of criteria: business model, course design and popularity among online users. Starting from this perspective, we built a range of representative factors for which we highlighted the major aspects for each plat-form in our comparative research

  8. Transcriptomics and comparative analysis of three antarctic notothenioid fishes.

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    Seung Chul Shin

    Full Text Available For the past 10 to 13 million years, Antarctic notothenioid fish have undergone extraordinary periods of evolution and have adapted to a cold and highly oxygenated Antarctic marine environment. While these species are considered an attractive model with which to study physiology and evolutionary adaptation, they are poorly characterized at the molecular level, and sequence information is lacking. The transcriptomes of the Antarctic fishes Notothenia coriiceps, Chaenocephalus aceratus, and Pleuragramma antarcticum were obtained by 454 FLX Titanium sequencing of a normalized cDNA library. More than 1,900,000 reads were assembled in a total of 71,539 contigs. Overall, 40% of the contigs were annotated based on similarity to known protein or nucleotide sequences, and more than 50% of the predicted transcripts were validated as full-length or putative full-length cDNAs. These three Antarctic fishes shared 663 genes expressed in the brain and 1,557 genes expressed in the liver. In addition, these cold-adapted fish expressed more Ub-conjugated proteins compared to temperate fish; Ub-conjugated proteins are involved in maintaining proteins in their native state in the cold and thermally stable Antarctic environments. Our transcriptome analysis of Antarctic notothenioid fish provides an archive for future studies in molecular mechanisms of fundamental genetic questions, and can be used in evolution studies comparing other fish.

  9. Comparative genomic analysis and phylogenetic position of Theileria equi

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    Kappmeyer Lowell S

    2012-11-01

    Full Text Available Abstract Background Transmission of arthropod-borne apicomplexan parasites that cause disease and result in death or persistent infection represents a major challenge to global human and animal health. First described in 1901 as Piroplasma equi, this re-emergent apicomplexan parasite was renamed Babesia equi and subsequently Theileria equi, reflecting an uncertain taxonomy. Understanding mechanisms by which apicomplexan parasites evade immune or chemotherapeutic elimination is required for development of effective vaccines or chemotherapeutics. The continued risk of transmission of T. equi from clinically silent, persistently infected equids impedes the goal of returning the U. S. to non-endemic status. Therefore comparative genomic analysis of T. equi was undertaken to: 1 identify genes contributing to immune evasion and persistence in equid hosts, 2 identify genes involved in PBMC infection biology and 3 define the phylogenetic position of T. equi relative to sequenced apicomplexan parasites. Results The known immunodominant proteins, EMA1, 2 and 3 were discovered to belong to a ten member gene family with a mean amino acid identity, in pairwise comparisons, of 39%. Importantly, the amino acid diversity of EMAs is distributed throughout the length of the proteins. Eight of the EMA genes were simultaneously transcribed. As the agents that cause bovine theileriosis infect and transform host cell PBMCs, we confirmed that T. equi infects equine PBMCs, however, there is no evidence of host cell transformation. Indeed, a number of genes identified as potential manipulators of the host cell phenotype are absent from the T. equi genome. Comparative genomic analysis of T. equi revealed the phylogenetic positioning relative to seven apicomplexan parasites using deduced amino acid sequences from 150 genes placed it as a sister taxon to Theileria spp. Conclusions The EMA family does not fit the paradigm for classical antigenic variation, and we propose a

  10. Multiple Simulated Annealing-Molecular Dynamics (MSA-MD) for Conformational Space Search of Peptide and Miniprotein.

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    Hao, Ge-Fei; Xu, Wei-Fang; Yang, Sheng-Gang; Yang, Guang-Fu

    2015-10-23

    Protein and peptide structure predictions are of paramount importance for understanding their functions, as well as the interactions with other molecules. However, the use of molecular simulation techniques to directly predict the peptide structure from the primary amino acid sequence is always hindered by the rough topology of the conformational space and the limited simulation time scale. We developed here a new strategy, named Multiple Simulated Annealing-Molecular Dynamics (MSA-MD) to identify the native states of a peptide and miniprotein. A cluster of near native structures could be obtained by using the MSA-MD method, which turned out to be significantly more efficient in reaching the native structure compared to continuous MD and conventional SA-MD simulation.

  11. SILAC-based comparative analysis of pathogenic Escherichia coli secretomes.

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    Boysen, Anders; Borch, Jonas; Krogh, Thøger Jensen; Hjernø, Karin; Møller-Jensen, Jakob

    2015-09-01

    Comparative studies of pathogenic bacteria and their non-pathogenic counterparts has led to the discovery of important virulence factors thereby generating insight into mechanisms of pathogenesis. Protein-based antigens for vaccine development are primarily selected among unique virulence-related factors produced by the pathogen of interest. However, recent work indicates that proteins that are not unique to the pathogen but instead selectively expressed compared to its non-pathogenic counterpart could also be vaccine candidates or targets for drug development. Modern methods in quantitative proteome analysis have the potential to discover both classes of proteins and hence form an important tool for discovering therapeutic targets. Adherent-invasive Escherichia coli (AIEC) and Enterotoxigenic E. coli (ETEC) are pathogenic variants of E. coli which cause intestinal disease in humans. AIEC is associated with Crohn's disease (CD), a chronic inflammatory condition of the gastrointestinal tract whereas ETEC is the major cause of human diarrhea which affects hundreds of millions annually. In spite of the disease burden associated with these pathogens, effective vaccines conferring long-term protection are still needed. In order to identify proteins with therapeutic potential, we have used mass spectrometry-based Stable Isotope Labeling with Amino acids in Cell culture (SILAC) quantitative proteomics method which allows us to compare the proteomes of pathogenic strains to commensal E. coli. In this study, we grew the pathogenic strains ETEC H10407, AIEC LF82 and the non-pathogenic reference strain E. coli K-12 MG1655 in parallel and used SILAC to compare protein levels in OMVs and culture supernatant. We have identified well-known virulence factors from both AIEC and ETEC, thus validating our experimental approach. In addition we find proteins that are not unique to the pathogenic strains but expressed at levels different from the commensal strain, including the

  12. An endophytic taxol-producing fungus from Taxus media, Cladosporium cladosporioides MD2.

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    Zhang, Peng; Zhou, Peng-Peng; Yu, Long-Jiang

    2009-09-01

    Fermentation processes using taxol-producing fungi other than Taxus spp. may be an alternative way to produce taxol, which is an important antitumor agent used widely in the clinic setting. In this study, a taxol-producing endophytic fungus strain MD2 was isolated from the inner bark of Taxus media. Strain MD2 produced taxol when grown in potato dextrose liquid medium. The fungal taxol-which was analyzed by ultraviolet, high-performance liquid chromatography and mass spectrometry-was shown to be identical to authentic taxol and 10-deacetylbaccatin III. Further analysis with nuclear magnetic resonance (NMR) spectroscopy to show the chemical structure of the fungal taxol indicated that the fungal taxol produced an NMR spectrum identical to that of authentic taxol. Strain MD2 was identified as Cladosporium cladosporioides according to morphology of the fungal culture, characteristics of the spores, and analysis of 18S rDNA sequence. In addition, 10-deacetylbaccatin III-10-O-acetyl transferase gene of C. cladosporioides MD2 was cloned for the first time and was shown to share 99% identity with that of T. x media and 97% identity with that of T. wallichiana var. mairei.

  13. Comparative efficacy and safety of contact force-sensing catheter and second-generation cryoballoon ablation for atrial fibrillation: a meta-analysis

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    X. Zhou

    Full Text Available This meta-analysis compared the efficacy and safety of the contact force (CF-sensing catheter and second-generation cryoballoon (CB ablation for treating atrial fibrillation (AF. Six controlled clinical trials comparing ablation for AF using a CF-sensing catheter or second-generation CB were identified from PubMed, EMBASE, Cochrane Library, Wanfang Data, and China National Knowledge Infrastructure. The procedure duration was significantly lower in the CB group compared with that in the CF group [mean difference (MD=29.4; 95%CI=17.84–40.96; P=0.01], whereas there was no difference between the groups for fluoroscopy duration (MD=0.59; 95%CI=–4.48–5.66; P=0.82. Moreover, there was no difference in the incidence of non-lethal complications (embolic event, tamponade, femoral/subclavian hematoma, arteriovenous fistula, pulmonary vein stenosis, phrenic nerve palsy, and esophageal injury between the CB and the CF groups (8.38 vs 5.35%; RR=0.66; 95%CI=0.37–1.17; P=0.15. Transient phrenic nerve palsy occurred in 17 of 326 patients (5.2% of the CB group vs none in the CF group (RR=0.12; 95%CI=0.03–0.43; P=0.001. A comparable proportion of patients in CF and CB groups suffered from AF recurrence during the 12-month follow-up after a single ablation procedure [risk ratio (RR=1.03; 95%CI=0.78–1.35; P=0.84]. AF ablation using CF-sensing catheters and second-generation CB showed comparable fluoroscopy duration and efficacy (during a 12-month follow-up, with shorter procedure duration and different complications in the CB group.

  14. A Comparison of the American Society of Cataract and Refractive Surgery post-myopic LASIK/PRK Intraocular Lens (IOL calculator and the Ocular MD IOL calculator

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    Hsu M

    2011-09-01

    Full Text Available David L DeMill1, Majid Moshirfar1, Marcus C Neuffer1, Maylon Hsu1, Shameema Sikder21John A Moran Eye Center, University of Utah, Salt Lake City, UT, USA; 2Wilmer Eye Institute, Johns Hopkins University, Baltimore, MD, USABackground: To compare the average values of the American Society of Cataract and Refractive Surgery (ASCRS and Ocular MD intraocular lens (IOL calculators to assess their accuracy in predicting IOL power in patients with prior laser-in-situ keratomileusis (LASIK or photorefractive keratectomy.Methods: In this retrospective study, data from 21 eyes with previous LASIK or photorefractive keratectomy for myopia and subsequent cataract surgery was used in an IOL calculator comparison. The predicted IOL powers of the Ocular MD SRK/T, Ocular MD Haigis, and ASCRS averages were compared. The Ocular MD average (composed of an average of Ocular MD SRK/T and Ocular MD Haigis and the all calculator average (composed of an average of Ocular MD SRK/T, Ocular MD Haigis, and ASCRS were also compared. Primary outcome measures were mean arithmetic and absolute IOL prediction error, variance in mean arithmetic IOL prediction error, and the percentage of eyes within ±0.50 and ±1.00 D.Results: The Ocular MD SRK/T and Ocular MD Haigis averages produced mean arithmetic IOL prediction errors of 0.57 and –0.61 diopters (D, respectively, which were significantly larger than errors from the ASCRS, Ocular MD, and all calculator averages (0.11, –0.02, and 0.02 D, respectively, all P < 0.05. There was no statistically significant difference between the methods in absolute IOL prediction error, variance, or the percentage of eyes with outcomes within ±0.50 and ±1.00 D.Conclusion: The ASCRS average was more accurate in predicting IOL power than the Ocular MD SRK/T and Ocular MD Haigis averages alone. Our methods using combinations of these averages which, when compared with the individual averages, showed a trend of decreased mean arithmetic IOL

  15. Comparative Proteome Analysis of Human Lung Squamous Carcinoma Tissue

    Institute of Scientific and Technical Information of China (English)

    LI Cui; TANG Can'e; DUAN Chaojun; YI Hong; XIAO Zhiqiang; CHEN Zhuchu

    2006-01-01

    Objective: To establish the two-dimensional electrophoresis profiles with high resolution and reproducibility from human lung squamous carcinoma tissue and paired normal tumor-adjacent bronchial epithelial tissue, and to identify differential expression tumor-associated proteins by using proteome analysis. Methods: Comparative proteome analysis with 20 human lung squamous carcinoma tissues and the paired normal bronchial epithelial tissues adjacent to tumors was carried out. The total proteins of human lung squamous carcinoma tissue and paired normal tumor-adjacent bronchial epithelial tissue were separated by means of immobilized pH gradient-based two-dimensional gel electrophoresis (2-DE) and silver staining. The differential expression proteins were analyzed and then identified by matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF-MS). Results: (1) Well-resolved, reproducible 2-DE patterns of human lung squamous carcinoma and adjacent normal bronchial epithelial tissues were obtained. For tumor tissue, average spots of 3 gels were 1567±46, and 1436±54 spots were matched with an average matching rate of 91.6%. For control, average spots of 3 gels were 1349±58, and 1228±35 spots were matched with an average matching rate of 91.03%. The average position deviation of matched spots was 0.924±0.128 mm in IEF direction, and 1.022±0.205 mm in SDS-PAGE direction; (2)A total of 1178±56 spots were matched between the electrophoretic maps of 20 human lung squamous carcinoma tissues and paired normal tumor-adjacent bronchial epithelial tissues. Seventy-six differentially expressed proteins were screened; (3) Sixty-eight differential proteins were identified by PMF, some proteins were the products of oncogenes, and others involved in the regulation of cell cycle and signal transduction;(4) In order to validate the reliability of the identified results, the expression of 3 proteins mdm2, c-jun and EGFR, which was correlated with lung

  16. MD-PhD training: looking back and looking forward.

    Science.gov (United States)

    Bonham, Ann C

    2014-01-01

    MD-PhD programs provide rigorous, integrated training for physician-scientists, enabling them to frame scientific questions in unique ways and to apply clinical insight to fundamental science. Few would question the influential contributions of MD-PhD physician-scientists in advancing medical science. In this issue of Academic Medicine, Jeffe et al affirm high levels of excellence in educational outcomes from MD-PhD training programs at U.S. MD-granting medical schools, especially programs that receive funding from the NIH Medical Scientist Training Program (MSTP). The author of this commentary observes that, in the face of current economic pressures, comprehensive, longitudinal national outcomes data from MSTP- and non-MSTP-funded MD-PhD programs will help verify the value provided by MD-PhD physician-scientists. She proposes that MD-PhD programs should better prepare the next generation of physician-scientists for future research environments, which will provide new technologies, venues, and modalities. These research environments will be more closely integrated within health care delivery systems, extend into diverse communities and regions, and employ complex technologies. MD-PhD physician-scientists also will train and gain expertise in broadening areas of research, such as health policy, health economics, clinical epidemiology, and medical informatics. Program leaders are ideally situated to foster innovative learning environments and methodologies. By sharing their innovations, they can help ensure production of a diverse MD-PhD physician-scientist workforce, prepared to engage in myriad research opportunities to meet patient and population needs in a new environment.

  17. Comparative kinetic analysis of two fungal β-glucosidases

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    Casanave Dominique

    2010-02-01

    Full Text Available Abstract Background The enzymatic hydrolysis of cellulose is still considered as one of the main limiting steps of the biological production of biofuels from lignocellulosic biomass. It is a complex multistep process, and various kinetic models have been proposed. The cellulase enzymatic cocktail secreted by Trichoderma reesei has been intensively investigated. β-glucosidases are one of a number of cellulolytic enzymes, and catalyze the last step releasing glucose from the inhibitory cellobiose. β-glucosidase (BGL1 is very poorly secreted by Trichoderma reesei strains, and complete hydrolysis of cellulose often requires supplementation with a commercial β-glucosidase preparation such as that from Aspergillus niger (Novozymes SP188. Surprisingly, kinetic modeling of β-glucosidases lacks reliable data, and the possible differences between native T. reesei and supplemented β-glucosidases are not taken into consideration, possibly because of the difficulty of purifying BGL1. Results A comparative kinetic analysis of β-glucosidase from Aspergillus niger and BGL1 from Trichoderma reesei, purified using a new and efficient fast protein liquid chromatography protocol, was performed. This purification is characterized by two major steps, including the adsorption of the major cellulases onto crystalline cellulose, and a final purification factor of 53. Quantitative analysis of the resulting β-glucosidase fraction from T. reesei showed it to be 95% pure. Kinetic parameters were determined using cellobiose and a chromogenic artificial substrate. A new method allowing easy and rapid determination of the kinetic parameters was also developed. β-Glucosidase SP188 (Km = 0.57 mM; Kp = 2.70 mM has a lower specific activity than BGL1 (Km = 0.38 mM; Kp = 3.25 mM and is also more sensitive to glucose inhibition. A Michaelis-Menten model integrating competitive inhibition by the product (glucose has been validated and is able to predict the

  18. Cross-sectional-derived determinants of satisfaction with physician-scientist training among Canadian MD/PhD graduates.

    Science.gov (United States)

    Twa, David D W; Skinnider, Michael A; Squair, Jordan W; Lukac, Christine D

    2017-01-01

    Although MD/PhD programs require considerable commitment on behalf of students and learning institutions, they serve as an integral means of training future physician-scientists; individuals who engage in translational medicine. As attrition from these programs has longstanding effects on the community of translational medicine and comes at substantial cost to MD/PhD programs, we aimed to identify determinants that were associated with satisfaction among MD/PhD graduates, a feature that might inform on limiting program attrition. Anonymized data from a national survey of 139 Canadian MD/PhD alumni was analyzed. Factor analysis was conducted to evaluate the reliability of three questions that measured satisfaction and logistic regression was used to assess the association of outcomes with 17 independent determinants. Eighty-one percent of graduates were satisfied with MD/PhD training. Factor analysis confirmed the reliability of the questions measuring satisfaction. Determinants of self-reported satisfaction with physician-scientist training included co-authorship of more than six manuscripts during MD/PhD training. Additionally, protected research time at the place of current appointment was strongly associated with agreement that MD/PhD training had helped career progression. Demographic variables were not associated with any satisfaction indicator. Taken together, the majority of Canadian MD/PhD graduates are satisfied with their physician-scientist training. Project collaboration leading to co-authorships and protected research time were strongly associated with training satisfaction among graduates. If the value of collaboration can be realized among current and future physician-scientist trainees who are dissatisfied with their training, this might ultimately reduce program attrition.

  19. THE SUSTAINABLE DEVELOPMENT IN THE EU AND ROMANIA: COMPARATIVE ANALYSIS

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    Victor PLATON

    2006-12-01

    Full Text Available The present paper has as purpose the comparative analysis of the way in which sustainable development is approached within EU and Romania. By this analysis it is aimed to identify ways and solutions for improving the future strategy of sustainable development in Romania. Most quoted definition of sustainable development is found in the Bruntland report, where sustainable development is described as „development meeting the needs of the present without compromising the capacity of future generations to meet their own needs”. In order to make this concept operational, the greatest challenges for sustainability within EU and Member States were taken into consideration. Several of the evolutions contrary to sustainable development have as starting point the choices made in the past regarding technology and infrastructure, use of land, etc. Many of these issues have common roots. Companies and individuals often face motivations triggering production and consumption in a way contrary to sustainable development. They may be insufficiently informed about chain effects generated by their actions, or about the available alternatives. Institutional hindrances make difficult the remedy to these inadvertencies. The most acute menaces facing sustainable development originate, as a rule, from some areas of sectoral policies. For instance, the attempt to face challenges facing population health might require enforcement of active actions in industry, agriculture, fiscal policy. When the policies are enforced sector by sector, disregarding effects on other sectors, the discrepancy between sectoral policies inevitably shows. The Strategy for Sustainable Development (SSD allows for the identification of actions to be undertaken in order to remedy the situation.

  20. Comparative analysis of discrete exosome fractions obtained by differential centrifugation

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    Dennis K. Jeppesen

    2014-11-01

    Full Text Available Background: Cells release a mixture of extracellular vesicles, amongst these exosomes, that differ in size, density and composition. The standard isolation method for exosomes is centrifugation of fluid samples, typically at 100,000×g or above. Knowledge of the effect of discrete ultracentrifugation speeds on the purification from different cell types, however, is limited. Methods: We examined the effect of applying differential centrifugation g-forces ranging from 33,000×g to 200,000×g on exosome yield and purity, using 2 unrelated human cell lines, embryonic kidney HEK293 cells and bladder carcinoma FL3 cells. The fractions were evaluated by nanoparticle tracking analysis (NTA, total protein quantification and immunoblotting for CD81, TSG101, syntenin, VDAC1 and calreticulin. Results: NTA revealed the lowest background particle count in Dulbecco's Modified Eagle's Medium media devoid of phenol red and cleared by 200,000×g overnight centrifugation. The centrifugation tube fill level impacted the sedimentation efficacy. Comparative analysis by NTA, protein quantification, and detection of exosomal and contamination markers identified differences in vesicle size, concentration and composition of the obtained fractions. In addition, HEK293 and FL3 vesicles displayed marked differences in sedimentation characteristics. Exosomes were pelleted already at 33,000×g, a g-force which also removed most contaminating microsomes. Optimal vesicle-to-protein yield was obtained at 67,000×g for HEK293 cells but 100,000×g for FL3 cells. Relative expression of exosomal markers (TSG101, CD81, syntenin suggested presence of exosome subpopulations with variable sedimentation characteristics. Conclusions: Specific g-force/k factor usage during differential centrifugation greatly influences the purity and yield of exosomes. The vesicle sedimentation profile differed between the 2 cell lines.

  1. Comparative analysis of different methods for graphene nanoribbon synthesis

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    Tošić Dragana D.

    2013-01-01

    Full Text Available Graphene nanoribbons (GNRs are thin strips of graphene that have captured the interest of scientists due to their unique structure and promising applications in electronics. This paper presents the results of a comparative analysis of morphological properties of graphene nanoribbons synthesized by different methods. Various methods have been reported for graphene nanoribons synthesis. Lithography methods usually include electron-beam (e-beam lithography, atomic force microscopy (AFM lithography, and scanning tunnelling microscopy (STM lithography. Sonochemical and chemical methods exist as well, namely chemical vapour deposition (CVD and anisotropic etching. Graphene nanoribbons can also be fabricated from unzipping carbon nanotubes (CNTs. We propose a new highly efficient method for graphene nanoribbons production by gamma irradiation of graphene dispersed in cyclopentanone (CPO. Surface morphology of graphene nanoribbons was visualized with atomic force and transmission electron microscopy. It was determined that dimensions of graphene nanoribbons are inversely proportional to applied gamma irradiation dose. It was established that the narrowest nanoribbons were 10-20 nm wide and 1 nm high with regular and smooth edges. In comparison to other synthesis methods, dimensions of graphene nanoribbons synthesized by gamma irradiation are slightly larger, but the yield of nanoribbons is much higher. Fourier transform infrared spectroscopy was used for structural analysis of graphene nanoribbons. Results of photoluminescence spectroscopy revealed for the first time that synthesized nanoribbons showed photoluminescence in the blue region of visible light in contrast to graphene nanoribbons synthesized by other methods. Based on disclosed facts, we believe that our synthesis method has good prospects for potential future mass production of graphene nanoribbons with uniform size, as well as for future investigations of carbon nanomaterials for

  2. A Comparative Study of Kernel and Robust Canonical Correlation Analysis

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    Ashad M. Alam

    2010-02-01

    Full Text Available A number of measures of canonical correlation coefficient are now used in multimedia related fields like object recognition, image segmentation facial expression recognition and pattern recognition in the different literature. Some robust forms of classical canonical correlation coefficient are introduced recently to address the robustness issue of the canonical coefficient in the presence of outliers and departure from normality. Also a few number of kernels are used in canonical analysis to capture nonlinear relationship in data space, which is linear in some higher dimensional feature space. But not much work has been done to investigate their relative performances through i simulation from the view point of sensitivity, breakdown analysis as well as ii using real data sets. In this paper an attempt has been made to compare performances of kernel canonical correlation coefficients (Gaussian function, Laplacian function and Polynomial function with that of robust and classical canonical correlation coefficient measures using simulation with five sample sizes (50, 500, 1000, 1500 and 2000, influence function, breakdown point along with several real data and a multi-modal data sets, focusing on the specific case of segmented images with associated text. We investigate the bias, mean square error(MISE, qualitative robustness index (RI, sensitivity curve of each estimator under a variety of situations and also employ box plots and scatter plots of canonical variates to judge their performances. We have observed that the class of kernel estimators perform better than the class of classical and robust estimators in general and the kernel estimator with Laplacian function has shown the best performance for large sample size and break down is high in case of nonlinear data.

  3. A comparative analysis of biclustering algorithms for gene expression data.

    Science.gov (United States)

    Eren, Kemal; Deveci, Mehmet; Küçüktunç, Onur; Çatalyürek, Ümit V

    2013-05-01

    The need to analyze high-dimension biological data is driving the development of new data mining methods. Biclustering algorithms have been successfully applied to gene expression data to discover local patterns, in which a subset of genes exhibit similar expression levels over a subset of conditions. However, it is not clear which algorithms are best suited for this task. Many algorithms have been published in the past decade, most of which have been compared only to a small number of algorithms. Surveys and comparisons exist in the literature, but because of the large number and variety of biclustering algorithms, they are quickly outdated. In this article we partially address this problem of evaluating the strengths and weaknesses of existing biclustering methods. We used the BiBench package to compare 12 algorithms, many of which were recently published or have not been extensively studied. The algorithms were tested on a suite of synthetic data sets to measure their performance on data with varying conditions, such as different bicluster models, varying noise, varying numbers of biclusters and overlapping biclusters. The algorithms were also tested on eight large gene expression data sets obtained from the Gene Expression Omnibus. Gene Ontology enrichment analysis was performed on the resulting biclusters, and the best enrichment terms are reported. Our analyses show that the biclustering method and its parameters should be selected based on the desired model, whether that model allows overlapping biclusters, and its robustness to noise. In addition, we observe that the biclustering algorithms capable of finding more than one model are more successful at capturing biologically relevant clusters.

  4. Comparative analysis of existing models for power-grid synchronization

    Science.gov (United States)

    Nishikawa, Takashi; Motter, Adilson E.

    2015-01-01

    The dynamics of power-grid networks is becoming an increasingly active area of research within the physics and network science communities. The results from such studies are typically insightful and illustrative, but are often based on simplifying assumptions that can be either difficult to assess or not fully justified for realistic applications. Here we perform a comprehensive comparative analysis of three leading models recently used to study synchronization dynamics in power-grid networks—a fundamental problem of practical significance given that frequency synchronization of all power generators in the same interconnection is a necessary condition for a power grid to operate. We show that each of these models can be derived from first principles within a common framework based on the classical model of a generator, thereby clarifying all assumptions involved. This framework allows us to view power grids as complex networks of coupled second-order phase oscillators with both forcing and damping terms. Using simple illustrative examples, test systems, and real power-grid datasets, we study the inherent frequencies of the oscillators as well as their coupling structure, comparing across the different models. We demonstrate, in particular, that if the network structure is not homogeneous, generators with identical parameters need to be modeled as non-identical oscillators in general. We also discuss an approach to estimate the required (dynamical) system parameters that are unavailable in typical power-grid datasets, their use for computing the constants of each of the three models, and an open-source MATLAB toolbox that we provide for these computations.

  5. Comparative analysis of slot dimension in lingual bracket systems

    Directory of Open Access Journals (Sweden)

    Dittmer Marc P

    2009-12-01

    Full Text Available Abstract Background Orthodontic treatment with fixed appliances requires - among others - the correct clinical expression of torque, which depends on the precise fitting of archwire and slot. Especially in the lingual technique torque problems become clinically more evident than in labial appliances also with respect to the vertical alignment of teeth due to different distances from the center of resistance. The purpose of the present study was to compare the preciseness of slot dimensions of different lingual bracket systems. Methods Three lingual bracket systems were included in the study (7th Generation and STb, Ormco, Glendora, CA, USA; Incognito, TOP-Service/3 M Unitek, Monrovia, CA, USA. Non destructive analysis of vertical slot dimensions was performed using precision pin gauges (Azurea, Belprahon, Switzerland that were tapered in increments of 0.002 mm (0.00008 inch. The sizes of 240 incisor and canine brackets were measured per system (total: 720. Data were compared using one-way ANOVA. A p-value Results Average slot dimensions were 0.467 mm ± 0.007 mm (0.0184 inch ± 0.0003 inch for the 7th Generation bracket system, 0.466 mm ± 0.004 mm (0.0183 inch ± 0.0001 inch for the STb bracket system and 0.459 mm ± 0.004 mm (0.0181 inch ± 0.0001 inch for the Incognito bracket system. Differences between systems were statistically significant (p Conclusions The analyzed bracket systems for lingual treatment exhibited significant differences in slot dimension that will clinically result in torque play. These aspects must be considered in lingual orthodontic treatment.

  6. Comparative analysis of Acinetobacters: three genomes for three lifestyles.

    Directory of Open Access Journals (Sweden)

    David Vallenet

    Full Text Available Acinetobacter baumannii is the source of numerous nosocomial infections in humans and therefore deserves close attention as multidrug or even pandrug resistant strains are increasingly being identified worldwide. Here we report the comparison of two newly sequenced genomes of A. baumannii. The human isolate A. baumannii AYE is multidrug resistant whereas strain SDF, which was isolated from body lice, is antibiotic susceptible. As reference for comparison in this analysis, the genome of the soil-living bacterium A. baylyi strain ADP1 was used. The most interesting dissimilarities we observed were that i whereas strain AYE and A. baylyi genomes harbored very few Insertion Sequence elements which could promote expression of downstream genes, strain SDF sequence contains several hundred of them that have played a crucial role in its genome reduction (gene disruptions and simple DNA loss; ii strain SDF has low catabolic capacities compared to strain AYE. Interestingly, the latter has even higher catabolic capacities than A. baylyi which has already been reported as a very nutritionally versatile organism. This metabolic performance could explain the persistence of A. baumannii nosocomial strains in environments where nutrients are scarce; iii several processes known to play a key role during host infection (biofilm formation, iron uptake, quorum sensing, virulence factors were either different or absent, the best example of which is iron uptake. Indeed, strain AYE and A. baylyi use siderophore-based systems to scavenge iron from the environment whereas strain SDF uses an alternate system similar to the Haem Acquisition System (HAS. Taken together, all these observations suggest that the genome contents of the 3 Acinetobacters compared are partly shaped by life in distinct ecological niches: human (and more largely hospital environment, louse, soil.

  7. Determinants of Banking Credit Default in Indonesia: A Comparative Analysis

    Directory of Open Access Journals (Sweden)

    Muhammad Imaduddin

    2008-08-01

    Full Text Available This study aims to analyze the determinants of Islamic banking credit default compared with conventional banking in Indonesia. This study utilized timeseries analysis, by which ordinary least square method is adopted. 40 monthly data observations from January 2003 until April 2006 are used. The study is divided into two models, namely Islamic banking model and conventional banking model. The values of non-performing financing (NPF in Islamic banking and non-performing loan (NPL in conventional banking are treated as the dependent variables. The results showed that two-month lagged of non-performing financing (NPF, total asset (ASSET, the amount of thirdparty-funds (TPF, one-month lagged of total financing (DFIN, and growthof gross-domestic product (GDPG variables have significant impact to the ratio of non-performing financing (NPF in Islamic banking. Meanwhile, the three-month lagged of non-performing loan (DDDNPL, total asset (CASSET, three-month as well as two-month period lagged of total loan (DDDCRED and DDCRED, inter-bank money market (PUAB, and growth of gross-domestic (GDPG are significant to influence the ratio of non-performing loan (NPL in conventional banking. The result also implied that the general election in 2004 had a significant influence to the ratio of non-performing financing (NPF in Islamic banking.Even tough from the outset, it seems Islamic banking has a better performance than conventional banking by having a relatively low NPF, this study, however, has found the opposite. Albeit, Islamic banking showing a good long-runas well as short-run dynamics among all variables in the beginning, after modifying the model into autoregressive in the main analysis, results showed that conventional banking has a better performance than Islamic banking with higher correlation of determination. In this regard, we cannot assume thatIslamic banking is performing poorly in managing credit default problems. This is because the result

  8. Social Pedagogy in Finland and Sweden: a comparative analysis

    Directory of Open Access Journals (Sweden)

    Juha Hämäläinen

    2015-12-01

    Full Text Available Discussing how the concept of social pedagogy has been used in Finland and Sweden, this paper provides a historical and systemic comparison of policies and practices of social pedagogy in these two countries. The main aim is to identify and explain the main similarities and differences between the Finnish and Swedish national trajectories of social pedagogical thinking and action. In the first phase of the analysis, country-specific features of social pedagogy were described paying attention to historical and structural aspects. In the second phase, these descriptions were compared in a dialogue between the au- thors, one from Finland and the other from Sweden. The dialogue-based comparison was targeted to ex- plain the identified similar and different features of social pedagogical policies and practices. The explanation was based on historical and systemic considerations, especially those of historical development, research activities, theory buildings, methodologies and techniques, professionalization and the practice fields, and the future prospects of social pedagogy.The analysis showed that the historical roots and theoretical foundations of social pedagogical think- ing and action are very similar in Finland and Sweden but the position of social pedagogy  as an academic discipline  as well as a field of practice is partly different. Since social pedagogy has not been acknowl- edged as an academic discipline in Sweden, its outlook as a field of practice is on shaky ground, while in Finland the future of social pedagogy as an academic discipline  is uncertain because the social-peda- gogical know-how based on academic education is not well known and has not found general acceptance in the field’s practice.The analysis showed that the historical roots and theoretical foundations of social pedagogical thinking and action are very similar in Finland and Sweden but the position of social pedagogy as an academic discipline as well as a

  9. MD5加密算法的研究

    Institute of Scientific and Technical Information of China (English)

    许琪

    2014-01-01

    MD5加密算法做为散列函数的一个重要算法,在文件校验、数字签名等诸多领域有着广泛的应用.虽然MD5加密算法是单向算法,但其仍无法抵御差分攻击和查字典攻击.文章在分析了差分攻击原理的基础上,阐述了MD5加密算法采用差分攻击产生碰撞的方法.

  10. The Achromatic Telescopic Squeezing (ATS) MD part III

    CERN Document Server

    Fartoukh, S; Goddard, B; Hofle, W; Jacquet, D; Kruk, G; Lamont, M; de Maria, R; Miyamoto, R; Mueller, G; Pojer, M; Ponce, L; Redaelli, S; Ryckx, N; Steinhagen, R; Strzelczyk, M; Vanbavinckhove, G; Wenninger, J

    2011-01-01

    This note highlights the results obtained during the third so-called ATS MD which took place in 2011. The goal of this MD was extremely challenging, targeting a pre-squeezed beta* of 40 cm in ATLAS and CMS, followed by a telescopic squeeze of these two insertions to finally reach a beta* of 10 cm both at IP1 and IP5. Due to the rather poor machine availability during the MD period, the time initially allocated to the ATS studies was hardly cut by a factor of 2, and "only" the achromatic pre-squeeze down to beta*=40 cm was demonstrated with beam.

  11. Environmental management in sugar-energy sector: a comparative analysis

    Directory of Open Access Journals (Sweden)

    Andréia Marize Rodrigues

    2014-11-01

    Full Text Available With the rise of the environmental variable in the business environment, companies started to give greater attention to strategies and practices focused on the rational use of natural resources and minimize the environmental impacts of their business operations. Many productive sectors stood out in the reflections on production and the environment, as is the case of the sugar energy industry, which constitutes a sector with a highly demanding industrial activity of natural resources, whether as sources of inputs as depositories of waste production. Thus, the aim of this paper is a comparative analysis of environmental practices of two sugar energy plants, both from the point of view of their operational strategy and regarding the suitability of the disposal of waste generated by the industrial area. It was concluded that, although many practices adopted by businesses are analogous, one of the studied plants have distinctive environmental performance, because of the increased attention given to the implementation of environmental practices and especially the inclusion of the environmental variable in their strategies.

  12. Comparative Analysis on Two Accounting Systems of Rural Economic Originations

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    In order to normalize the financial account of two kinds of economic organizations,the comparative analysis is conducted on the Accounting System of Village Collective Economic Organization and Accounting System of Farmers’ Cooperatives(Trial) issued by the Ministry of Finance.The comparison points out that application and accounting principles of the two kinds of accounting systems are different.The differences and similarities of the five accounting elements are analyzed including property,liabilities,rights of owners,costs and profits and losses,as well as the reasons of the differences and similarities.Results show that both of the two accounting systems reflect the principles of simplification and clarification.The village collective accounting system works in rural village committee,which acts the administrative duties,the features of concerted benefits of it is showed.While the accounting system of farmers’ cooperatives is based on the village collective accounting system and combines the norms of accounting system of enterprises,so the system represents the demands of collaboration and profit-making.

  13. Comparative analysis of ADS gene promoter in seven Artemisia species

    Indian Academy of Sciences (India)

    Mojtaba Ranjbar; Mohammad Reza Naghavi; Hoshang Alizadeh

    2014-12-01

    Artemisinin is the most effective antimalarial drug that is derived from Artemisia annua. Amorpha-4,11-diene synthase (ADS) controls the first committed step in artemisinin biosynthesis. The ADS gene expression is regulated by transcription factors which bind to the cis-acting elements on the ADS promoter and are probably responsible for the ADS gene expression difference in the Artemisia species. To identify the elements that are significantly involved in ADS gene expression, the ADS gene promoter of the seven Artemisia species was isolated and comparative analysis was performed on the ADS promoter sequences of these species. Results revealed that some of the cis-elements were unique or in terms of number were more in the high artemisinin producer species, A. annua, than the other species. We have reported that the light-responsive elements, W-box, CAAT-box, 5′-UTR py-rich stretch, TATA-box sequence and tandem repeat sequences have been identified as important factors in the increased expression of ADS gene.

  14. Comparative analysis of the core inflation for Russia

    Directory of Open Access Journals (Sweden)

    A. K. Sapova

    2016-01-01

    Full Text Available Consumer price index is a measure of inflation and it consists of two parts: persistent component (trend inflation and short-term shocks. Inflation targeting requires index of core inflation, that independent from shortterm shocks and demonstrates the changes of the trend inflation. Reserve Banks pay attention on the changes in the trend inflation, when they take decisions about monetary policy, because it’s more informative than consumer price index for estimation of medium-term inflation risks. The objective of this article is detecting the index of core inflation that could be appropriate for monetary policy. There are some different measures of core inflation based on practice of Reserve Banks from different countries and economic articles. The comparative analysis presented in this article is based on several types of tests. The result of the research is that core consumer price index that is used today has got both advantages and weaknesses. Moreover, there is index of core inflation based on new methodology that is better than core consumer price index of Federal Sate Statistics Service. It is concluded that the Central Bank should focus precisely on this indicator when it takes decisions about monetary policy.

  15. Comparative analysis of known miRNAs across platyhelminths.

    Science.gov (United States)

    Jin, Xiaoliang; Lu, Lixia; Su, Hailong; Lou, Zhongzi; Wang, Fang; Zheng, Yadong; Xu, Guo-Tong

    2013-08-01

    MicroRNAs (miRNAs) are a subtype of small regulatory RNAs that are involved in numerous biological processes through small RNA-induced silencing networks. In an attempt to explore the phylogeny of miRNAs across five platyhelminths, we integrated annotated miRNAs and their full genomes. We identified conserved miRNA clusters and, in particular, miR-71/2 was conserved from planarian to parasitic flatworms and was expanded in free-living Schmidtea mediterranea. Analysis of 22 miRNA loci provided compelling evidence that most known miRNAs are conserved across platyhelminths. Meanwhile, we also observed alterations of known protein-coding genes flanking miRNA(s), such as transcriptional direction conversion and locus relocation, in around ~ 41% of 22 known miRNA loci. Compared with Echinococcus multilocularis, the majority of these events occurred in evolution-distant Hymenolepis microstoma, Schistosoma japonicum or/and S. mediterranea. These results imply rearrangement events occurred near the known miRNA loci.

  16. Geomorphometric comparative analysis of Latin-American volcanoes

    Science.gov (United States)

    Camiz, Sergio; Poscolieri, Maurizio; Roverato, Matteo

    2017-07-01

    The geomorphometric classifications of three groups of volcanoes situated in the Andes Cordillera, Central America, and Mexico are performed and compared. Input data are eight local topographic gradients (i.e. elevation differences) obtained by processing each volcano raster ASTER-GDEM data. The pixels of each volcano DEM have been classified into 17 classes through a K-means clustering procedure following principal component analysis of the gradients. The spatial distribution of the classes, representing homogeneous terrain units, is shown on thematic colour maps, where colours are assigned according to mean slope and aspect class values. The interpretation of the geomorphometric classification of the volcanoes is based on the statistics of both gradients and morphometric parameters (slope, aspect and elevation). The latter were used for a comparison of the volcanoes, performed through classes' slope/aspect scatterplots and multidimensional methods. In this paper, we apply the mentioned methodology on 21 volcanoes, randomly chosen from Mexico to Patagonia, to show how it may contribute to detect geomorphological similarities and differences among them. As such, both its descriptive and graphical abilities may be a useful complement to future volcanological studies.

  17. The Knowledge Competitiveness of Macedonian Economy – Comparative Analysis

    Directory of Open Access Journals (Sweden)

    Eftimoski Dimitar

    2012-09-01

    Full Text Available When a firm or economy realizes a competitive advantage, actually it possesses something which others lack, and does something which others cannot do, or do not know how to do it. Firms’ competitiveness, mostly, stems from knowledge and competency. Basically, it is the accumulation of capital in the form of knowledge, in most of the firms’ constitutive systems. Competitivenessdetermines the productivity level of an economy, whereas the productivity level determines the sustainable prosperity level of an economy. The knowledge economy offers virtually unlimited resources, as human capacity to create is boundless. Taking into consideration the abovementioned facts, the aim of this paper is to provide responses to the following questions: Why should contemporary firms and economies invest in new knowledge? What is the knowledge competitiveness level of the Macedonian firms and economy? What is the knowledge competitiveness of the Macedonian economy in comparisonwith the knowledge competitiveness of innovation-driven economies and the remaining efficiency-driven economies? In order to obtain the answers to these questions, we will make use of some theoretical experiences, supported by a comparative empirical analysis which, in essence, is based on the composite indicators - Knowledge Index and Global Competitiveness Index.

  18. Statistical analysis of unlabeled point sets: comparing molecules in chemoinformatics.

    Science.gov (United States)

    Dryden, Ian L; Hirst, Jonathan D; Melville, James L

    2007-03-01

    We consider Bayesian methodology for comparing two or more unlabeled point sets. Application of the technique to a set of steroid molecules illustrates its potential utility involving the comparison of molecules in chemoinformatics and bioinformatics. We initially match a pair of molecules, where one molecule is regarded as random and the other fixed. A type of mixture model is proposed for the point set coordinates, and the parameters of the distribution are a labeling matrix (indicating which pairs of points match) and a concentration parameter. An important property of the likelihood is that it is invariant under rotations and translations of the data. Bayesian inference for the parameters is carried out using Markov chain Monte Carlo simulation, and it is demonstrated that the procedure works well on the steroid data. The posterior distribution is difficult to simulate from, due to multiple local modes, and we also use additional data (partial charges on atoms) to help with this task. An approximation is considered for speeding up the simulation algorithm, and the approximating fast algorithm leads to essentially identical inference to that under the exact method for our data. Extensions to multiple molecule alignment are also introduced, and an algorithm is described which also works well on the steroid data set. After all the steroid molecules have been matched, exploratory data analysis is carried out to examine which molecules are similar. Also, further Bayesian inference for the multiple alignment problem is considered.

  19. Comparative analysis of used car price evaluation models

    Science.gov (United States)

    Chen, Chuancan; Hao, Lulu; Xu, Cong

    2017-05-01

    An accurate used car price evaluation is a catalyst for the healthy development of used car market. Data mining has been applied to predict used car price in several articles. However, little is studied on the comparison of using different algorithms in used car price estimation. This paper collects more than 100,000 used car dealing records throughout China to do empirical analysis on a thorough comparison of two algorithms: linear regression and random forest. These two algorithms are used to predict used car price in three different models: model for a certain car make, model for a certain car series and universal model. Results show that random forest has a stable but not ideal effect in price evaluation model for a certain car make, but it shows great advantage in the universal model compared with linear regression. This indicates that random forest is an optimal algorithm when handling complex models with a large number of variables and samples, yet it shows no obvious advantage when coping with simple models with less variables.

  20. A combined approach for comparative exoproteome analysis of Corynebacterium pseudotuberculosis

    Directory of Open Access Journals (Sweden)

    Scrivens James H

    2011-01-01

    Full Text Available Abstract Background Bacterial exported proteins represent key components of the host-pathogen interplay. Hence, we sought to implement a combined approach for characterizing the entire exoproteome of the pathogenic bacterium Corynebacterium pseudotuberculosis, the etiological agent of caseous lymphadenitis (CLA in sheep and goats. Results An optimized protocol of three-phase partitioning (TPP was used to obtain the C. pseudotuberculosis exoproteins, and a newly introduced method of data-independent MS acquisition (LC-MSE was employed for protein identification and label-free quantification. Additionally, the recently developed tool SurfG+ was used for in silico prediction of sub-cellular localization of the identified proteins. In total, 93 different extracellular proteins of C. pseudotuberculosis were identified with high confidence by this strategy; 44 proteins were commonly identified in two different strains, isolated from distinct hosts, then composing a core C. pseudotuberculosis exoproteome. Analysis with the SurfG+ tool showed that more than 75% (70/93 of the identified proteins could be predicted as containing signals for active exportation. Moreover, evidence could be found for probable non-classical export of most of the remaining proteins. Conclusions Comparative analyses of the exoproteomes of two C. pseudotuberculosis strains, in addition to comparison with other experimentally determined corynebacterial exoproteomes, were helpful to gain novel insights into the contribution of the exported proteins in the virulence of this bacterium. The results presented here compose the most comprehensive coverage of the exoproteome of a corynebacterial species so far.

  1. A comparative analysis of viral matrix proteins using disorder predictors

    Directory of Open Access Journals (Sweden)

    Dunker A Keith

    2008-10-01

    Full Text Available Abstract Background A previous study (Goh G.K.-M., Dunker A.K., Uversky V.N. (2008 Protein intrinsic disorder toolbox for comparative analysis of viral proteins. BMC Genomics. 9 (Suppl. 2, S4 revealed that HIV matrix protein p17 possesses especially high levels of predicted intrinsic disorder (PID. In this study, we analyzed the PID patterns in matrix proteins of viruses related and unrelated to HIV-1. Results Both SIVmac and HIV-1 p17 proteins were predicted by PONDR VLXT to be highly disordered with subtle differences containing 50% and 60% disordered residues, respectively. SIVmac is very closely related to HIV-2. A specific region that is predicted to be disordered in HIV-1 is missing in SIVmac. The distributions of PID patterns seem to differ in SIVmac and HIV-1 p17 proteins. A high level of PID for the matrix does not seem to be mandatory for retroviruses, since Equine Infectious Anemia Virus (EIAV, an HIV cousin, has been predicted to have low PID level for the matrix; i.e. its matrix protein p15 contains only 21% PID residues. Surprisingly, the PID percentage and the pattern of predicted disorder distribution for p15 resemble those of the influenza matrix protein M1 (25%. Conclusion Our data might have important implications in the search for HIV vaccines since disorder in the matrix protein might provide a mechanism for immune evasion.

  2. Comparative Analysis of PSO Algorithms for PID Controller Tuning

    Institute of Scientific and Technical Information of China (English)

    ŠTIMAC Goranka; BRAUT Sanjin; ŽIGULIĆRoberto

    2014-01-01

    The active magnetic bearing(AMB) suspends the rotating shaft and maintains it in levitated position by applying controlled electromagnetic forces on the rotor in radial and axial directions. Although the development of various control methods is rapid, PID control strategy is still the most widely used control strategy in many applications, including AMBs. In order to tune PID controller, a particle swarm optimization(PSO) method is applied. Therefore, a comparative analysis of particle swarm optimization(PSO) algorithms is carried out, where two PSO algorithms, namely (1) PSO with linearly decreasing inertia weight(LDW-PSO), and (2) PSO algorithm with constriction factor approach(CFA-PSO), are independently tested for different PID structures. The computer simulations are carried out with the aim of minimizing the objective function defined as the integral of time multiplied by the absolute value of error(ITAE). In order to validate the performance of the analyzed PSO algorithms, one-axis and two-axis radial rotor/active magnetic bearing systems are examined. The results show that PSO algorithms are effective and easily implemented methods, providing stable convergence and good computational efficiency of different PID structures for the rotor/AMB systems. Moreover, the PSO algorithms prove to be easily used for controller tuning in case of both SISO and MIMO system, which consider the system delay and the interference among the horizontal and vertical rotor axes.

  3. Comparative analysis of PSO algorithms for PID controller tuning

    Science.gov (United States)

    Štimac, Goranka; Braut, Sanjin; Žigulić, Roberto

    2014-09-01

    The active magnetic bearing(AMB) suspends the rotating shaft and maintains it in levitated position by applying controlled electromagnetic forces on the rotor in radial and axial directions. Although the development of various control methods is rapid, PID control strategy is still the most widely used control strategy in many applications, including AMBs. In order to tune PID controller, a particle swarm optimization(PSO) method is applied. Therefore, a comparative analysis of particle swarm optimization(PSO) algorithms is carried out, where two PSO algorithms, namely (1) PSO with linearly decreasing inertia weight(LDW-PSO), and (2) PSO algorithm with constriction factor approach(CFA-PSO), are independently tested for different PID structures. The computer simulations are carried out with the aim of minimizing the objective function defined as the integral of time multiplied by the absolute value of error(ITAE). In order to validate the performance of the analyzed PSO algorithms, one-axis and two-axis radial rotor/active magnetic bearing systems are examined. The results show that PSO algorithms are effective and easily implemented methods, providing stable convergence and good computational efficiency of different PID structures for the rotor/AMB systems. Moreover, the PSO algorithms prove to be easily used for controller tuning in case of both SISO and MIMO system, which consider the system delay and the interference among the horizontal and vertical rotor axes.

  4. Comparative analysis of hazardous household waste in two Mexican regions.

    Science.gov (United States)

    Delgado, Otoniel Buenrostro; Ojeda-Benítez, Sara; Márquez-Benavides, Liliana

    2007-01-01

    Household hazardous waste (HHW) generation in two Mexican regions was examined, a northern region (bordering with the USA) and a central region. The aim of this work was to determine the dynamics of solid waste generation and to be able to compare the results of both regions, regarding consumption patterns and solid waste generation rates. In the northern region, household solid waste was analysed quantitatively. In order to perform this analysis, the population was categorized into three socioeconomic strata (lower, middle, upper). Waste characterization revealed the presence of products that give origin to household hazardous waste. In the northern region (Mexicali city), household hazardous waste comprised 3.7% of municipal solid waste, the largest categories in this fraction were home care products (29.2%), cleaning products (19.5%) and batteries and electronic equipment (15.7%). In the central region, HHW comprised 1.03% of municipal solid waste; the main categories in this fraction were represented by cleaning products (39%), self care products (27.3%), and insecticides (14.4%). In Mexicali, the socioeconomic study demonstrated that the production of HHW is independent of the income level. Furthermore, the composition of the solid waste stream in both regions suggested the influence of another set of variables such as local climate, migration patterns and marketing coverage. Further research is needed in order to establish the effect of low quantities of HHW upon the environment and public health.

  5. A comparative quadrant analysis of turbulence in a plant canopy

    Science.gov (United States)

    Yue, Wusi; Meneveau, Charles; Parlange, Marc B.; Zhu, Weihong; van Hout, René; Katz, Joseph

    2007-05-01

    Large-eddy simulation (LES) of turbulence in plant canopies has traditionally been validated using bulk statistical quantities such as mean velocity and variance profiles. However, turbulent exchanges between a plant canopy and the atmosphere are dominated by large-scale coherent structures, and therefore LES must also be validated using statistical tools that are sensitive to details of coherent structures. In this study, LES and measurements using particle image velocimetry (PIV) are compared near the top of the canopy by means of a quadrant-hole analysis of turbulent kinetic energy, vorticity, and dissipation rate. The LES resolves coarse features of individual corn plants and uses the Lagrangian scale-dependent dynamic subgrid model. At the measurement location, there is good agreement between the LES predictions and the field data in terms of most conditionally sampled quantities, confirming the applicability of LES for fundamental studies of vegetation-air interactions and coherent structures. The simulation results confirm that sweeps (the fourth-quadrant events) contribute the largest fraction of turbulent kinetic energy, vorticity, and dissipation rate inside the plant canopy. The magnitudes of the vorticity and dissipation rate at the top of the canopy are highest in the first quadrant (rare events of outward interactions).

  6. Comparing Administration of Hospital Wastes Using Social Network Analysis

    Directory of Open Access Journals (Sweden)

    Ali Mustafa

    2016-01-01

    Full Text Available Waste management requires interaction between different players. It is important to map theses interactions to identify key players. This study utilizes social network analysis to compare the organization of waste management activities at two different hospitals. One of these hospitals was a large public hospital whereas the other one was a small private hospital. The structure and characteristics of the waste management network varied at both hospitals. On the whole the network at the larger hospital was institutional and the one at the smaller hospital was social in nature. At the larger hospital communication between any two members on average required three degrees of freedom. Moreover, its waste management network was characterized by the presence of three brokers whose absence could split the network into smaller disparate components. At the smaller hospital the waste management activities suffered from a lack of involvement from the paramedic staff. Thus its waste management network was more compact and communication between most of the network members did not require an intermediary. In both hospitals, a feedback mechanism between the municipal sanitary staff and hospital management was conspicuous by its absence. Hence issues such as an incidence of hazardous items mixed in the general waste could not be communicated to the hospital directly. The key positions identified in this study can be used for behavioral changes related to waste management among the concerned hospital staff.

  7. A Comparative Analysis of Community Wind Power DevelopmentModels

    Energy Technology Data Exchange (ETDEWEB)

    Bolinger, Mark; Wiser, Ryan; Wind, Tom; Juhl, Dan; Grace, Robert; West, Peter

    2005-05-20

    For years, farmers in the United States have looked with envy on their European counterparts ability to profitably farm the wind through ownership of distributed, utility-scale wind projects. Only within the past few years, however, has farmer- or community-owned windpower development become a reality in the United States. The primary hurdle to this type of development in the United States has been devising and implementing suitable business and legal structures that enable such projects to take advantage of tax-based federal incentives for windpower. This article discusses the limitations of such incentives in supporting farmer- or community-owned wind projects, describes four ownership structures that potentially overcome such limitations, and finally conducts comparative financial analysis on those four structures, using as an example a hypothetical 1.5 MW farmer-owned project located in the state of Oregon. We find that material differences in the competitiveness of each structure do exist, but that choosing the best structure for a given project will largely depend on the conditions at hand; e.g., the ability of the farmer(s) to utilize tax credits, preference for individual versus cooperative ownership, and the state and utility service territory in which the project will be located.

  8. Comparative Analysis of German and Anglo-Saxon Business Culture

    Directory of Open Access Journals (Sweden)

    Hamburg Andrea

    2013-05-01

    Full Text Available Two premises built the starting point for following study: that cultural background, cultural conditioning have a considerable influence upon business area at one hand and at the other hand that nations having common origins are likely to present similar cultural conditioning. The first hypothesis found proving in the works of theoreticians and practitioners like E.T. Hall, Geert Hofstede, Richard Gesteland and others dealing with the problem of people’s “mental programming” called culture and with cultural differences around the world. For the second premise we wanted to analyze three cultures having common Germanic roots namely the German, British (focusing on the English component of it and American cultures through the prism of their concept of time, relation to business, working and communicational style, structure of management, attitude towards hierarchy and interpersonal distance including physical contact. As the results of our comparative analysis showed above mentioned business cultures had very much in common regarding attitude to time, business and interpersonal distance but in the other segments they presented considerable differences as well. Taking all aspects into consideration the similarities deriving from their common Germanic origin offer the three cultures in question some advantages in business relations but the essential differences they present should be minded, too to avoid failure in deal making.

  9. Comparative Proteomic Analysis of Rice Shoots Exposed to High Arsenate

    Institute of Scientific and Technical Information of China (English)

    Yanli Liu; Ming Li; Chao Han; Fengxia Wu; Bingkun Tu; Pingfang Yang

    2013-01-01

    Consumption of arsenic contaminated water and cereals is a serious threat to humans all over the world. Rice (Oryza sativa“Nipponbare”), as a main cereal crop, can accumulate arsenic more than 10-fold that of in other cereals. To gain a comprehensive understanding of the response of rice subjected to 100 mM arsenate stress, a comparative proteomic analysis of rice shoots in combination with morphological and biochemical investigations have been performed in this study. The results demonstrated that arsenate suppressed the growth of rice seedlings, destroyed the cellular ultra-structure and changed the homeostasis of reactive oxygen species. Moreover, a total of 38 differentially displayed proteins, which were mainly involved in metabolism, redox and protein-metabolism, were identified. The data suggest the arsenic can inhibit rice growth through negatively affecting chloroplast structure and photosynthesis. In addition, upregulation of the proteins involved in redox and protein metabolism might help the rice to be resistant or tolerant to arsenic toxicity. In general, this study improves our understanding about the rice arsenic responsive mechanism.

  10. Sequencing and comparative analysis of the gorilla MHC genomic sequence.

    Science.gov (United States)

    Wilming, Laurens G; Hart, Elizabeth A; Coggill, Penny C; Horton, Roger; Gilbert, James G R; Clee, Chris; Jones, Matt; Lloyd, Christine; Palmer, Sophie; Sims, Sarah; Whitehead, Siobhan; Wiley, David; Beck, Stephan; Harrow, Jennifer L

    2013-01-01

    Major histocompatibility complex (MHC) genes play a critical role in vertebrate immune response and because the MHC is linked to a significant number of auto-immune and other diseases it is of great medical interest. Here we describe the clone-based sequencing and subsequent annotation of the MHC region of the gorilla genome. Because the MHC is subject to extensive variation, both structural and sequence-wise, it is not readily amenable to study in whole genome shotgun sequence such as the recently published gorilla genome. The variation of the MHC also makes it of evolutionary interest and therefore we analyse the sequence in the context of human and chimpanzee. In our comparisons with human and re-annotated chimpanzee MHC sequence we find that gorilla has a trimodular RCCX cluster, versus the reference human bimodular cluster, and additional copies of Class I (pseudo)genes between Gogo-K and Gogo-A (the orthologues of HLA-K and -A). We also find that Gogo-H (and Patr-H) is coding versus the HLA-H pseudogene and, conversely, there is a Gogo-DQB2 pseudogene versus the HLA-DQB2 coding gene. Our analysis, which is freely available through the VEGA genome browser, provides the research community with a comprehensive dataset for comparative and evolutionary research of the MHC.

  11. Comparative analysis of marine ecosystems: international production modelling workshop.

    Science.gov (United States)

    Link, Jason S; Megrey, Bernard A; Miller, Thomas J; Essington, Tim; Boldt, Jennifer; Bundy, Alida; Moksness, Erlend; Drinkwater, Ken F; Perry, R Ian

    2010-12-23

    Understanding the drivers that dictate the productivity of marine ecosystems continues to be a globally important issue. A vast literature identifies three main processes that regulate the production dynamics of such ecosystems: biophysical, exploitative and trophodynamic. Exploring the prominence among this 'triad' of drivers, through a synthetic analysis, is critical for understanding how marine ecosystems function and subsequently produce fisheries resources of interest to humans. To explore this topic further, an international workshop was held on 10-14 May 2010, at the National Academy of Science's Jonsson Center in Woods Hole, MA, USA. The workshop compiled the data required to develop production models at different hierarchical levels (e.g. species, guild, ecosystem) for many of the major Northern Hemisphere marine ecosystems that have supported notable fisheries. Analyses focused on comparable total system biomass production, functionally equivalent species production, or simulation studies for 11 different marine fishery ecosystems. Workshop activities also led to new analytical tools. Preliminary results suggested common patterns driving overall fisheries production in these ecosystems, but also highlighted variation in the relative importance of each among ecosystems.

  12. The Chlamydia psittaci genome: a comparative analysis of intracellular pathogens.

    Directory of Open Access Journals (Sweden)

    Anja Voigt

    Full Text Available BACKGROUND: Chlamydiaceae are a family of obligate intracellular pathogens causing a wide range of diseases in animals and humans, and facing unique evolutionary constraints not encountered by free-living prokaryotes. To investigate genomic aspects of infection, virulence and host preference we have sequenced Chlamydia psittaci, the pathogenic agent of ornithosis. RESULTS: A comparison of the genome of the avian Chlamydia psittaci isolate 6BC with the genomes of other chlamydial species, C. trachomatis, C. muridarum, C. pneumoniae, C. abortus, C. felis and C. caviae, revealed a high level of sequence conservation and synteny across taxa, with the major exception of the human pathogen C. trachomatis. Important differences manifest in the polymorphic membrane protein family specific for the Chlamydiae and in the highly variable chlamydial plasticity zone. We identified a number of psittaci-specific polymorphic membrane proteins of the G family that may be related to differences in host-range and/or virulence as compared to closely related Chlamydiaceae. We calculated non-synonymous to synonymous substitution rate ratios for pairs of orthologous genes to identify putative targets of adaptive evolution and predicted type III secreted effector proteins. CONCLUSIONS: This study is the first detailed analysis of the Chlamydia psittaci genome sequence. It provides insights in the genome architecture of C. psittaci and proposes a number of novel candidate genes mostly of yet unknown function that may be important for pathogen-host interactions.

  13. MD5加密算法改进及其特征码在杀毒软件中的应用%An improved MD5 encryption algorithm and application in anti-virus software

    Institute of Scientific and Technical Information of China (English)

    贾晓强

    2015-01-01

    文章分析了MD5算法发展、危机、碰撞分析并加入"盐值"对算法做了改进,然后给出了其C++的具体实现算法;分析MD5特征码的特点构建了特征库配置文件,用VC实现了基于特征码的杀毒软件,此软件能根据文件特征码(MD5值)成功删除可疑文件。%The paper analyzed the development, crisis and the collision of the MD5 algorithm,by adding the"salt value", the algorithm has been improved. And then gived the concrete implementation of the algorithm with c++language;Analysis of the characteristics of the MD5 signature feature ,database configuration file is constructed, using VC implementation anti-virus software based on signature feature, the software can according to the file signature (MD5 value) successfully delete suspicious files.

  14. Comparative sequence analysis of a highly oncogenic but horizontal spread-defective clone of Marek's disease virus.

    Science.gov (United States)

    Spatz, Stephen J; Zhao, Yuguang; Petherbridge, Lawrence; Smith, Lorraine P; Baigent, Susan J; Nair, Venugopal

    2007-12-01

    Marek's disease virus (MDV) is a cell-associated alphaherpesvirus that induces rapid-onset T-cell lymphomas in poultry. MDV isolates vary greatly in pathogenicity. While some of the strains such as CVI988 are non-pathogenic and are used as vaccines, others such as RB-1B are highly oncogenic. Molecular determinants associated with differences in pathogenicity are not completely understood. Comparison of the genome sequences of phenotypically different strains could help to identify molecular determinants of pathogenicity. We have previously reported the construction of bacterial artificial chromosome (BAC) clones of RB-1B from which fully infectious viruses could be reconstituted upon DNA transfection into chicken cells. MDV reconstituted from one of these clones (pRB-1B-5) showed similar in vitro and in vivo replication kinetics and oncogenicity as the parental virus. However, unlike the parental RB-1B virus, the BAC-derived virus showed inability to spread between birds. In order to identify the unique determinants for oncogenicity and the ''non-spreading phenotype'' of MDV derived from this clone, we determined the full-length sequence of pRB-1B-5. Comparative sequence analysis with the published sequences of strains such as Md5, Md11, and CVI988 identified frameshift mutations in RLORF1, protein kinase (UL13), and glycoproteins C (UL44) and D (US6). Comparison of the sequences of these genes with the parental virus indicated that the RLORF1, UL44, and US6 mutations were also present in the parental RB-1B stock of the virus. However with regard to UL13 mutation, the parental RB-1B stock appeared to be a mixture of wild type and mutant viruses, indicating that the BAC cloning has selected a mutant clone. Although further studies are needed to evaluate the role of these genes in the horizontal-spreading defective phenotype, our data clearly indicate that mutations in these genes do not affect the oncogenicity of MDV.

  15. A comparative analysis on two solar proton events

    Institute of Scientific and Technical Information of China (English)

    LE GuiMing; HAN YanBen; ZHANG YiJun

    2007-01-01

    This paper presents a comparative analysis on the two Solar Proton Events (SPE), which occurred on 14 July 2000 (Bastille Day) and 28 October 2003 (28OCT03) respectively. It is found that although the peak flux of the latter seemed to be greater than that of the former based on geostationary observations, the maximum intensities of the energetic protons (>10 MeV and 30 MeV) during the Bastille Day event were all higher than those of the 28OCT03 event according to the interplanetary observations. Further analysis indicated that the quantity of the seed particles, which could be accelerated to the energies exceeding 10 and 30 MeV by the Coronal Mass Ejection (CME)-driven shock on 14 July 2000, was far larger than that of the 28OCT03 event. In the Bastille Day case, when the CME approached to the height around 14 R⊙, the CME-driven shock would reach its maximum capacity in accelerating the solar energetic protons (>100 MeV). In contrast, on 28 October 2003, when CME approached to the height about 58R⊙, the CME-driven shock reached its highest potential in accelerating the solar energetic protons of the same category. At this moment, the peak flux (>100 MeV) was about 155 pfu, which was much lower than 355 pfu measured on 14 July 2000. This demonstrated that in the Bastille Day event, the quantity of the seed particles, which could be accelerated to the energy beyond 100 MeV, was significantly larger than its counterpart in the 28OCT03 case. Therefore, the peak flux of an SPE event depends not only on the interplanetary intensity of the solar energetic particles, but also on the velocity of the associated CME-driven shock, and the quantity of the seed particles as well as on the interplanetary magnetic environment. This paper also reveals that the magnetic sheath associated with ICME on 28 October 2003 captured a large number of solar energetic protons, including those having energy greater than 100 MeV.

  16. The draft genome of MD-2 pineapple using hybrid error correction of long reads

    Science.gov (United States)

    Redwan, Raimi M.; Saidin, Akzam; Kumar, S. Vijay

    2016-01-01

    The introduction of the elite pineapple variety, MD-2, has caused a significant market shift in the pineapple industry. Better productivity, overall increased in fruit quality and taste, resilience to chilled storage and resistance to internal browning are among the key advantages of the MD-2 as compared with its previous predecessor, the Smooth Cayenne. Here, we present the genome sequence of the MD-2 pineapple (Ananas comosus (L.) Merr.) by using the hybrid sequencing technology from two highly reputable platforms, i.e. the PacBio long sequencing reads and the accurate Illumina short reads. Our draft genome achieved 99.6% genome coverage with 27,017 predicted protein-coding genes while 45.21% of the genome was identified as repetitive elements. Furthermore, differential expression of ripening RNASeq library of pineapple fruits revealed ethylene-related transcripts, believed to be involved in regulating the process of non-climacteric pineapple fruit ripening. The MD-2 pineapple draft genome serves as an example of how a complex heterozygous genome is amenable to whole genome sequencing by using a hybrid technology that is both economical and accurate. The genome will make genomic applications more feasible as a medium to understand complex biological processes specific to pineapple. PMID:27374615

  17. Comparative genomic analysis of Vibrio parahaemolyticus: serotype conversion and virulence

    Directory of Open Access Journals (Sweden)

    Gil Ana I

    2011-06-01

    Full Text Available Abstract Background Vibrio parahaemolyticus is a common cause of foodborne disease. Beginning in 1996, a more virulent strain having serotype O3:K6 caused major outbreaks in India and other parts of the world, resulting in the emergence of a pandemic. Other serovariants of this strain emerged during its dissemination and together with the original O3:K6 were termed strains of the pandemic clone. Two genomes, one of this virulent strain and one pre-pandemic strain have been sequenced. We sequenced four additional genomes of V. parahaemolyticus in this study that were isolated from different geographical regions and time points. Comparative genomic analyses of six strains of V. parahaemolyticus isolated from Asia and Peru were performed in order to advance knowledge concerning the evolution of V. parahaemolyticus; specifically, the genetic changes contributing to serotype conversion and virulence. Two pre-pandemic strains and three pandemic strains, isolated from different geographical regions, were serotype O3:K6 and either toxin profiles (tdh+, trh- or (tdh-, trh+. The sixth pandemic strain sequenced in this study was serotype O4:K68. Results Genomic analyses revealed that the trh+ and tdh+ strains had different types of pathogenicity islands and mobile elements as well as major structural differences between the tdh pathogenicity islands of the pre-pandemic and pandemic strains. In addition, the results of single nucleotide polymorphism (SNP analysis showed that 94% of the SNPs between O3:K6 and O4:K68 pandemic isolates were within a 141 kb region surrounding the O- and K-antigen-encoding gene clusters. The "core" genes of V. parahaemolyticus were also compared to those of V. cholerae and V. vulnificus, in order to delineate differences between these three pathogenic species. Approximately one-half (49-59% of each species' core genes were conserved in all three species, and 14-24% of the core genes were species-specific and in different

  18. Comparison of Basic Science Knowledge Between DO and MD Students.

    Science.gov (United States)

    Davis, Glenn E; Gayer, Gregory G

    2017-02-01

    With the coming single accreditation system for graduate medical education, medical educators may wonder whether knowledge in basic sciences is equivalent for osteopathic and allopathic medical students. To examine whether medical students' basic science knowledge is the same among osteopathic and allopathic medical students. A dataset of the Touro University College of Osteopathic Medicine-CA student records from the classes of 2013, 2014, and 2015 and the national cohort of National Board of Medical Examiners Comprehensive Basic Science Examination (NBME-CBSE) parameters for MD students were used. Models of the Comprehensive Osteopathic Medical Licensing Examination-USA (COMLEX-USA) Level 1 scores were fit using linear and logistic regression. The models included variables used in both osteopathic and allopathic medical professions to predict COMLEX-USA outcomes, such as Medical College Admission Test biology scores, preclinical grade point average, number of undergraduate science units, and scores on the NBME-CBSE. Regression statistics were studied to compare the effectiveness of models that included or excluded NBME-CBSE scores at predicting COMLEX-USA Level 1 scores. Variance inflation factor was used to investigate multicollinearity. Receiver operating characteristic curves were used to show the effectiveness of NBME-CBSE scores at predicting COMLEX-USA Level 1 pass/fail outcomes. A t test at 99% level was used to compare mean NBME-CBSE scores with the national cohort. A total of 390 student records were analyzed. Scores on the NBME-CBSE were found to be an effective predictor of COMLEX-USA Level 1 scores (Pdifference was found in performance on the NBME-CBSE between osteopathic and allopathic medical students (P=.322). As an examination constructed to assess the basic science knowledge of allopathic medical students, the NBME-CBSE is effective at predicting performance on COMLEX-USA Level 1. In addition, osteopathic medical students performed the same as

  19. MD5Hash加密算法在SQL Server2005中的应用%Application of MD5 Hash Encryption Algorithm in SQL Server 2005

    Institute of Scientific and Technical Information of China (English)

    李红日

    2011-01-01

    在对MD5算法进行简要描述的同时,对MD5算法的原理作深入分析.介绍在C创建MD5 Hash算法的函数,在SQL Server中应用MD5哈希算法,并且经过测试可以准确实现MD5 Hash加密算法.

  20. Find an Orthopaedic Foot and Ankle MD/DO

    Science.gov (United States)

    ... Content AOFAS / FootCareMD / Find a Surgeon Find an Orthopaedic Foot & Ankle Surgeon Page Content The Orthopaedic Distinction Who are Orthopaedic Foot & Ankle Surgeons? Orthopaedic foot and ankle surgeons ...

  1. Molecular Dynamics Simulations and XAFS (MD-XAFS)

    Energy Technology Data Exchange (ETDEWEB)

    Schenter, Gregory K.; Fulton, John L.

    2017-01-20

    MD-XAFS (Molecular Dynamics X-ray Adsorption Fine Structure) makes the connection between simulation techniques that generate an ensemble of molecular configurations and the direct signal observed from X-ray measurement.

  2. Comparative Genomic Analysis of Mannheimia haemolytica from Bovine Sources.

    Directory of Open Access Journals (Sweden)

    Cassidy L Klima

    Full Text Available Bovine respiratory disease is a common health problem in beef production. The primary bacterial agent involved, Mannheimia haemolytica, is a target for antimicrobial therapy and at risk for associated antimicrobial resistance development. The role of M. haemolytica in pathogenesis is linked to serotype with serotypes 1 (S1 and 6 (S6 isolated from pneumonic lesions and serotype 2 (S2 found in the upper respiratory tract of healthy animals. Here, we sequenced the genomes of 11 strains of M. haemolytica, representing all three serotypes and performed comparative genomics analysis to identify genetic features that may contribute to pathogenesis. Possible virulence associated genes were identified within 14 distinct prophage, including a periplasmic chaperone, a lipoprotein, peptidoglycan glycosyltransferase and a stress response protein. Prophage content ranged from 2-8 per genome, but was higher in S1 and S6 strains. A type I-C CRISPR-Cas system was identified in each strain with spacer diversity and organization conserved among serotypes. The majority of spacers occur in S1 and S6 strains and originate from phage suggesting that serotypes 1 and 6 may be more resistant to phage predation. However, two spacers complementary to the host chromosome targeting a UDP-N-acetylglucosamine 2-epimerase and a glycosyl transferases group 1 gene are present in S1 and S6 strains only indicating these serotypes may employ CRISPR-Cas to regulate gene expression to avoid host immune responses or enhance adhesion during infection. Integrative conjugative elements are present in nine of the eleven genomes. Three of these harbor extensive multi-drug resistance cassettes encoding resistance against the majority of drugs used to combat infection in beef cattle, including macrolides and tetracyclines used in human medicine. The findings here identify key features that are likely contributing to serotype related pathogenesis and specific targets for vaccine design

  3. A comparative study of RNA-seq analysis strategies.

    Science.gov (United States)

    Jänes, Jürgen; Hu, Fengyuan; Lewin, Alexandra; Turro, Ernest

    2015-11-01

    Three principal approaches have been proposed for inferring the set of transcripts expressed in RNA samples using RNA-seq. The simplest approach uses curated annotations, which assumes the transcripts in a sample are a subset of the transcripts listed in a curated database. A more ambitious method involves aligning reads to a reference genome and using the alignments to infer the transcript structures, possibly with the aid of a curated transcript database. The most challenging approach is to assemble reads into putative transcripts de novo without the aid of reference data. We have systematically assessed the properties of these three approaches through a simulation study. We have found that the sensitivity of computational transcript set estimation is severely limited. Computational approaches (both genome-guided and de novo assembly) produce a large number of artefacts, which are assigned large expression estimates and absorb a substantial proportion of the signal when performing expression analysis. The approach using curated annotations shows good expression correlation even when the annotations are incomplete. Furthermore, any incorrect transcripts present in a curated set do not absorb much signal, so it is preferable to have a curation set with high sensitivity than high precision. Software to simulate transcript sets, expression values and sequence reads under a wider range of parameter values and to compare sensitivity, precision and signal-to-noise ratios of different methods is freely available online (https://github.com/boboppie/RSSS) and can be expanded by interested parties to include methods other than the exemplars presented in this article. © The Author 2015. Published by Oxford University Press.

  4. beta* leveling with telescopic ATS squeeze (MD 2410)

    CERN Document Server

    Wenninger, Jorg; Hostettler, Michi; Pojer, Mirko; Ponce, Laurette; Tydecks, Tobias; CERN. Geneva. ATS Department

    2017-01-01

    Luminosity leveling by beta* is the baseline operational scenario of HL-LHC, and this leveling technique may be used in 2018 or during run~3 depending on the beam parameters and beta* range. During this MD beta*leveling was commissioned successfully for the first time with the telescopic squeeze over the beta* range of 40 cm to 30 cm. A novel beta* leveling controls technique based on a modification of the LSA trim was also tested during the MD.

  5. A COMPARATIVE STATISTICAL ANALYSIS OF RICE CULTIVARS DATA

    Directory of Open Access Journals (Sweden)

    Mugemangango Cyprien

    2012-12-01

    Full Text Available In this paper, rice cultivars data have been analysed by three different statisticaltechniques viz. Split-plot analysis in RBD, two-factor factorial analysis in RBD and analysis oftwo-way classified data with several observations per cell. The powers of the tests under differentmethods of analysis have been calculated. The method of two-way classified data with severalobservations per cell is found better followed by two-factor factorial technique in RBD and splitplot analysis for analyzing the given data.

  6. Atomic level insights into realistic molecular models of dendrimer-drug complexes through MD simulations

    Science.gov (United States)

    Jain, Vaibhav; Maiti, Prabal K.; Bharatam, Prasad V.

    2016-09-01

    Computational studies performed on dendrimer-drug complexes usually consider 1:1 stoichiometry, which is far from reality, since in experiments more number of drug molecules get encapsulated inside a dendrimer. In the present study, molecular dynamic (MD) simulations were implemented to characterize the more realistic molecular models of dendrimer-drug complexes (1:n stoichiometry) in order to understand the effect of high drug loading on the structural properties and also to unveil the atomistic level details. For this purpose, possible inclusion complexes of model drug Nateglinide (Ntg) (antidiabetic, belongs to Biopharmaceutics Classification System class II) with amine- and acetyl-terminated G4 poly(amidoamine) (G4 PAMAM(NH2) and G4 PAMAM(Ac)) dendrimers at neutral and low pH conditions are explored in this work. MD simulation analysis on dendrimer-drug complexes revealed that the drug encapsulation efficiency of G4 PAMAM(NH2) and G4 PAMAM(Ac) dendrimers at neutral pH was 6 and 5, respectively, while at low pH it was 12 and 13, respectively. Center-of-mass distance analysis showed that most of the drug molecules are located in the interior hydrophobic pockets of G4 PAMAM(NH2) at both the pH; while in the case of G4 PAMAM(Ac), most of them are distributed near to the surface at neutral pH and in the interior hydrophobic pockets at low pH. Structural properties such as radius of gyration, shape, radial density distribution, and solvent accessible surface area of dendrimer-drug complexes were also assessed and compared with that of the drug unloaded dendrimers. Further, binding energy calculations using molecular mechanics Poisson-Boltzmann surface area approach revealed that the location of drug molecules in the dendrimer is not the decisive factor for the higher and lower binding affinity of the complex, but the charged state of dendrimer and drug, intermolecular interactions, pH-induced conformational changes, and surface groups of dendrimer do play an

  7. Research of the Hash Algorithm Based on MD5%MD5散列算法的研究

    Institute of Scientific and Technical Information of China (English)

    姜学军; 曹烨

    2014-01-01

    借鉴了M.M.J.Stevens的碰撞思路,重新编写了MD5碰撞算法中的核心循环,主要提供一对MD5碰撞产生的过程以及碰撞的完成.通过实验统计分析,利用改进的MD5碰撞算法找到一对碰撞信息所用平均时间不多于60s,且该算法较之传统的MD5碰撞算法具有更好的可读性和可移植性.

  8. Comparative analysis of aerosols elemental distribution in some Romanian regions

    Science.gov (United States)

    Amemiya, Susumu; Masuda, Toshio; Popa-Simil, Liviu; Mateescu, Liviu

    1996-04-01

    The study's main aim is obtaining aerosols particulate elemental distribution and mapping it for some Romanian regions, in order to obtain preliminary information regarding the concentrations of aerosol particles and networking strategy versus local conditions. For this we used the mobile sampling strategy, but taking care on all local specific conditions and weather. In the summer of 1993, in July we took about 8 samples on a rather large territory of SE Romania which were analysed and mapped. The regions which showed an interesting behaviour or doubts such as Bucharest and Dobrogea were zoomed in near the same period of 1994, for comparing the new details with the global aspect previously obtained. An attempt was made to infer the minimum necessary number of stations in a future monitoring network. A mobile sampler was used, having tow polycarbonate filter posts of 8 and 0.4 μm. PIXE elemental analysis was performed on a 2.5 MV Van de Graaff accelerator, by using a proton beam. More than 15 elements were measured. Suggestive 2D and 3D representations were drawn, as well as histogram charts for the concentrations' distribution in the specific regions at the specified times. In spite of the poor samples from the qualitative point of view the experiment surprised us by the good coincidence (good agreement) with realities in terrain known by other means long time ago, and highlighted the power of PIXE methods in terms of money and time. Conclusions over the link between industry, traffic, vegetation, wether, surface waters, soil composition, power plant exhaust and so on, on the one hand, and surface concentration distribution, on the other, were drawn. But the method's weak points were also highlighted; these are weather dependencies (especially air masses movement and precipitation), local relief, microclimate and vegetation, and of course localisation of the sampling point versus the pollution sources and their regime. The paper contains a synthesis of the whole

  9. Identification of key residues that confer Rhodobacter sphaeroides LPS activity at horse TLR4/MD-2.

    Directory of Open Access Journals (Sweden)

    Katherine L Irvine

    Full Text Available The molecular determinants underpinning how hexaacylated lipid A and tetraacylated precursor lipid IVa activate Toll-like receptor 4 (TLR4 are well understood, but how activation is induced by other lipid A species is less clear. Species specificity studies have clarified how TLR4/MD-2 recognises different lipid A structures, for example tetraacylated lipid IVa requires direct electrostatic interactions for agonism. In this study, we examine how pentaacylated lipopolysaccharide from Rhodobacter sphaeroides (RSLPS antagonises human TLR4/MD-2 and activates the horse receptor complex using a computational approach and cross-species mutagenesis. At a functional level, we show that RSLPS is a partial agonist at horse TLR4/MD-2 with greater efficacy than lipid IVa. These data suggest the importance of the additional acyl chain in RSLPS signalling. Based on docking analysis, we propose a model for positioning of the RSLPS lipid A moiety (RSLA within the MD-2 cavity at the TLR4 dimer interface, which allows activity at the horse receptor complex. As for lipid IVa, RSLPS agonism requires species-specific contacts with MD-2 and TLR4, but the R2 chain of RSLA protrudes from the MD-2 pocket to contact the TLR4 dimer in the vicinity of proline 442. Our model explains why RSLPS is only partially dependent on horse TLR4 residue R385, unlike lipid IVa. Mutagenesis of proline 442 into a serine residue, as found in human TLR4, uncovers the importance of this site in RSLPS signalling; horse TLR4 R385G/P442S double mutation completely abolishes RSLPS activity without its counterpart, human TLR4 G384R/S441P, being able to restore it. Our data highlight the importance of subtle changes in ligand positioning, and suggest that TLR4 and MD-2 residues that may not participate directly in ligand binding can determine the signalling outcome of a given ligand. This indicates a cooperative binding mechanism within the receptor complex, which is becoming increasingly

  10. 基于MD5和Session的PHP安全防范%PHP security based on Session and MD5

    Institute of Scientific and Technical Information of China (English)

    何秉荣

    2014-01-01

    根据Session工作原理和MD5算法的特性,分析了PHP中Session欺骗与攻击手段,并较有针对性地在防范Session攻击的技术中结合MD5函数,从而提出了一个较为有效、实用的防范措施.

  11. Comparing Active Pediatric Obesity Treatments Using Meta-Analysis

    Science.gov (United States)

    Gilles, Allyson; Cassano, Michael; Shepherd, Elizabeth J.; Higgins, Diana; Hecker, Jeffrey E.; Nangle, Douglas W.

    2008-01-01

    The current meta-analysis reviews research on the treatment of pediatric obesity focusing on studies that have been published since 1994. Eleven studies (22 comparisons, 115 effect sizes, N = 447) were included in the present meta-analysis. Results indicated that comprehensive behavioral interventions may be improved in at least two ways:…

  12. A Comparative Assessment of Greek Universities' Efficiency Using Quantitative Analysis

    Science.gov (United States)

    Katharaki, Maria; Katharakis, George

    2010-01-01

    In part due to the increased demand for higher education, typical evaluation frameworks for universities often address the key issue of available resource utilisation. This study seeks to estimate the efficiency of 20 public universities in Greece through quantitative analysis (including performance indicators, data envelopment analysis (DEA) and…

  13. A Comparative Assessment of Greek Universities' Efficiency Using Quantitative Analysis

    Science.gov (United States)

    Katharaki, Maria; Katharakis, George

    2010-01-01

    In part due to the increased demand for higher education, typical evaluation frameworks for universities often address the key issue of available resource utilisation. This study seeks to estimate the efficiency of 20 public universities in Greece through quantitative analysis (including performance indicators, data envelopment analysis (DEA) and…

  14. A Comparative Study of Science, Systems Analysis and Futurism

    Science.gov (United States)

    Correa, Hector

    1975-01-01

    The proper framework for studying different methods of problem-solving is to recognize that there are different approaches to the analysis of reality. Three approaches--science, systems analysis, and futurism--are considered within the framework of the "theory of knowledge." (Author/IRT)

  15. Community College Student Mental Health: A Comparative Analysis

    Science.gov (United States)

    Katz, Daniel Seth; Davison, Karen

    2014-01-01

    This study explores community college student mental health by comparing the responses of California community college and traditional university students on the American College Health Association-National College Health Assessment II (ACHA-NCHA II). Using MANOVA, we compared community college and traditional university students, examining…

  16. Comparative transcriptome analysis of the metal hyperaccumulator Noccaea caerulescens

    NARCIS (Netherlands)

    Halimaa, P.; Blande, D.; Aarts, M.G.M.; Tuomainen, M.; Tervahauta, A.; Karenlampi, S.

    2014-01-01

    The metal hyperaccumulator Noccaea caerulescens is an established model to study the adaptation of plants to metalliferous soils. Various comparators have been used in these studies. The choice of suitable comparators is important and depends on the hypothesis to be tested and methods to be used. In

  17. MD-1 deficiency attenuates dextran sodium sulfate (DSS)-induced colitis through modulating the function of colonic lamina propria dendritic cells.

    Science.gov (United States)

    Pan, Huaqin; Zhang, Guqin; Zhang, Lin; Wang, Wei; Shang, Jian; Wang, Xiaobing; Zhao, Qiu; Li, Jin

    2016-07-01

    Available evidence suggests that both dysregulated innate and adaptive immune pathways contribute to the aberrant intestinal inflammatory response in patients with inflammatory bowel disease (IBD). Myeloid Differentiation 1 (MD-1), also known as Lymphocyte Antigen 86 (Ly86), a secreted protein interacting with radioprotective 105 (RP105), plays an important role in Toll-like receptor 4 (TLR4) signaling pathway. Previous studies showed that MD-1 may be involved in the (patho) physiological regulation of the innate immune system and inflammation. In this study, we reported for the first time that MD-1 mRNA expression was up-regulated in both human IBD patients and DSS-treated WT mice. We showed that MD-1(-/-) mice were less susceptible to the development of colitis than WT controls as demonstrated by significantly reduced weight loss, disease activity index, colon histological scores, cellular infiltration and expression of inflammatory mediators. In addition, mucosal barrier function seemed to be intact in response to the loss of MD-1. Finally, lamina propria dendritic cells (LPDCs) from the colon of MD-1(-/-) mice after DSS exposure not only decreased in number but also significantly down-regulated the expression of surface maturation co-stimulatory molecules MHC-II, CD40 and CD86 compared with those from WT mice. Taken together, our results reveal that MD-1 deficiency is of critical importance in down-regulating induction and progression of DSS colitis, thereby suggesting that MD-1 might be a target for future interventional therapies of IBD.

  18. Comparative analysis of beef and fish consumption in Ekwusigo ...

    African Journals Online (AJOL)

    Open Access DOWNLOAD FULL TEXT ... Descriptive statistics and regression analysis was used in analyzing the data. ... geared towards the production of more fish such as establishment of more fish ponds be put in place by the government.

  19. A comparative analysis of watershed and edge based segmentation ...

    African Journals Online (AJOL)

    MJP

    2015-03-17

    Mar 17, 2015 ... to be used for the analysis were gotten from published research works. A database that contains ... The complexity and diversity of medical images, uniform gray-scale ..... Canny J. A computational approach to edge detection.

  20. comparative analysis of the growth performance and haemolymph ...

    African Journals Online (AJOL)

    Dr Osondu

    Ethiopian Journal of Environmental Studies and Management Vol. 4 No.2 2011 ... AND HAEMOLYMPH. BIOCHEMICAL PROPERTIES OF NORMAL AND ALBINO GIANT LAND .... Haemolymph Chemical Analysis. Ten snails (5 each from ...

  1. A Comparative Analysis of Fuzzy Inference Engines in Context of ...

    African Journals Online (AJOL)

    PROF. O. E. OSUAGWU

    automatic control, data classification, decision analysis, expert engines, time series prediction, robotics ... inference engines, max-product, max-min and root sum in fuzzy controllers using profitability ...... Hall, Upper Saddle River, NJ, 1991. [4].

  2. A comparative analysis of South African Life Sciences and Biology ...

    African Journals Online (AJOL)

    Hennie

    Keywords: Biology textbooks; Life Sciences textbooks; nature of science; school ... reform, this article reports on the analysis of South African Life Sciences and Biology .... molecular studies; structures and control processes; ..... References.

  3. Electroporation of archaeal lipid membranes using MD simulations.

    Science.gov (United States)

    Polak, Andraž; Tarek, Mounir; Tomšič, Matija; Valant, Janez; Ulrih, Nataša Poklar; Jamnik, Andrej; Kramar, Peter; Miklavčič, Damijan

    2014-12-01

    Molecular dynamics (MD) simulations were used to investigate the electroporation of archaeal lipid bilayers when subjected to high transmembrane voltages induced by a charge imbalance, mimicking therefore millisecond electric pulse experiments. The structural characteristics of the bilayer, a 9:91 mol% 2,3-di-O-sesterterpanyl-sn-glicerol-1-phospho-myo-inositol (AI) and 2,3-di-O-sesterterpanyl-sn-glicerol-1-phospho-1'(2'-O-α-D-glucosyl)-myo-inositol (AGI) were compared to small angle X-ray scattering data. A rather good agreement of the electron density profiles at temperatures of 298 and 343 K was found assessing therefore the validity of the protocols and force fields used in simulations. Compared to dipalmitoyl-phosphatidylcholine (DPPC), the electroporation threshold for the bilayer was found to increase from ~2 V to 4.3 V at 323 K, and to 5.2 V at 298 K. Comparing the electroporation thresholds of the archaeal lipids to those of simple diphytanoyl-phosphatidylcholine (DPhPC) bilayers (2.5 V at 323 K) allowed one to trace back the stability of the membranes to the structure of their lipid head groups. Addition of DPPC in amounts of 50 mol% to the archaeal lipid bilayers decreases their stability and lowers the electroporation thresholds to 3.8 V and 4.1 V at respectively 323 and 298 K. The present study therefore shows how membrane compositions can be selected to cover a wide range of responses to electric stimuli. This provides new routes for the design of liposomes that can be efficiently used as drug delivery carriers, as the selection of their composition allows one to tune in their electroporation threshold for subsequent release of their load.

  4. A Comparative Analysis of Selected Aspects of the

    African Journals Online (AJOL)

    10332324

    REGULATING TRADITIONAL JUSTICE IN SOUTH AFRICA: A. COMPARATIVE ... See the Traditional Leadership and Governance Framework Act 41 of 2003 and the Traditional .... must therefore not be in conflict with the Constitution. When it ...

  5. Comparative analysis of harmonized forest area stimates for European countries

    DEFF Research Database (Denmark)

    Seebach, Lucia Maria; Strobl, P.; Miguel-Ayanz, J. San

    2011-01-01

    contain uncertainties, which must be quantified and included in the error budget. This is a prerequisite for combining and comparing data. The purpose of this study is to compare, taking into account uncertainties, forest area estimates for year 2000 derived from four different harmonized satellite...... the best accordance with official statistics due to its focus on land use. The other maps overestimated the forest area in mountainous countries and showed underestimation in countries with large forest area or open forest formations....

  6. Comparative experimental analysis of composite pulses in 14N NQR.

    Science.gov (United States)

    Mikhaltsevitch, V T; Rudakov, T N; Flexman, J H; Hayes, P A; Chisholm, W P

    2004-01-01

    Experimental results of comparing composite pulses in nitrogen-14 NQR, that are analogous to common 90 degrees RF pulses in powder, are presented. All tested pulses have been taken from publications in journals. Comparative diagrams of the measurement results for induction signals and echo signals are presented. The results of the measurements demonstrate that the best outcomes are achieved when the composite pulse (45)0(95)180(164)0 is used.

  7. Comparative analysis of calculation models of railway subgrade

    Directory of Open Access Journals (Sweden)

    I.O. Sviatko

    2013-08-01

    Full Text Available Purpose. In transport engineering structures design, the primary task is to determine the parameters of foundation soil and nuances of its work under loads. It is very important to determine the parameters of shear resistance and the parameters, determining the development of deep deformations in foundation soils, while calculating the soil subgrade - upper track structure interaction. Search for generalized numerical modeling methods of embankment foundation soil work that include not only the analysis of the foundation stress state but also of its deformed one. Methodology. The analysis of existing modern and classical methods of numerical simulation of soil samples under static load was made. Findings. According to traditional methods of analysis of ground masses work, limitation and the qualitative estimation of subgrade deformations is possible only indirectly, through the estimation of stress and comparison of received values with the boundary ones. Originality. A new computational model was proposed in which it will be applied not only classical approach analysis of the soil subgrade stress state, but deformed state will be also taken into account. Practical value. The analysis showed that for accurate analysis of ground masses work it is necessary to develop a generalized methodology for analyzing of the rolling stock - railway subgrade interaction, which will use not only the classical approach of analyzing the soil subgrade stress state, but also take into account its deformed one.

  8. CJDATS CO-OCCURRING DISORDERS SCREENING INSTRUMENT (CODSI) FOR MENTAL DISORDERS (MD): A Validation Study

    OpenAIRE

    SACKS, STANLEY; Melnick, Gerald; Coen, Carrie; Banks, Steve; Friedmann, Peter D.; Grella, Christine; Knight, Kevin; Zlotnick, Caron

    2007-01-01

    Three standardized screening instruments—the Global Appraisal of Individual Needs Short Screener (GSS), the Mini-International Neuropsychiatric Interview–Modified (MINI-M), and the Mental Health Screening Form (MHSF)—were compared to two shorter instruments, the 6-item Co-Occurring Disorders Screening Instrument for Mental Disorders (CODSI-MD) and the 3-item CODSI for Severe Mental Disorders (CODSI-SMD) for use with offenders in prison substance-abuse treatment programs. Results showed that t...

  9. Comparative Analysis of Two Models of the Strouma River Ecosystem

    Directory of Open Access Journals (Sweden)

    Mitko Petrov

    2008-04-01

    Full Text Available A modified method of regression analysis for modelling of the water quality of river ecosystems is offered. The method is distinguished from the conventional regression analysis of that the factors included in the regression dependence are time functions. Two type functions are tested: polynomial and periodical. The investigations show better results the periodical functions give. In addition, a model for analysis of river quality has been developed, which is a modified method of the time series analysis. The model has been applied for an assessment of water pollution of the Strouma river. An assessment for adequately of the obtained model of the statistical criteria - correlation coefficient, Fisher function and relative error is developed and it shows that the models are adequate and they can be used for modelling of the water pollution on these indexes of the Strouma river. The analysis of the river pollution shows that there is not a materially increase of the anthropogenic impact of the Strouma river in the Bulgarian part for the period from 2001 to 2004.

  10. Collision-induced light scattering spectra of krypton layer confined between graphite slabs - MD simulation

    Science.gov (United States)

    Dawid, A.; Wojcieszyk, D.; Gburski, Z.

    2016-12-01

    We have used the molecular dynamics (MD) simulation method to obtain the collision-induced light scattering spectra of the thin krypton layer confined between two parallel graphite slabs. The simulations have been made under constant density, pressure and temperature condition. We have investigated four thin krypton layers of the thickness ranging from 13 to 24 Å. The 2-, 3- and 4-body correlation functions of collision-induced polarizability anisotropy were calculated. The spectra of colliding krypton atoms were simulated as cosine Fourier transform of the total polarizability anisotropy correlation function. The calculated correlation functions and their spectra show substantial dependence on the distance between graphite slabs. The collision-induced light scattering spectrum of krypton bulk sample was also simulated and compared with the krypton layer between graphite walls. The striking differences between these two systems are observed. We have further extended our analysis of krypton movement between graphite slabs by calculating the mean square displacement functions and diffusion coefficients. The decrease of the diffusion of krypton atoms with the increasing distance between graphite walls has been found. The structure of krypton layer has been also investigated by calculating the density profile and pressure tension across the rift. The distance between graphite slabs, for which the highest mobility of krypton's atoms occurred, has been found.

  11. Comparative Analysis of Vehicle Make and Model Recognition Techniques

    Directory of Open Access Journals (Sweden)

    Faiza Ayub Syed

    2014-03-01

    Full Text Available Vehicle Make and Model Recognition (VMMR has emerged as a significant element of vision based systems because of its application in access control systems, traffic control and monitoring systems, security systems and surveillance systems, etc. So far a number of techniques have been developed for vehicle recognition. Each technique follows different methodology and classification approaches. The evaluation results highlight the recognition technique with highest accuracy level. In this paper we have pointed out the working of various vehicle make and model recognition techniques and compare these techniques on the basis of methodology, principles, classification approach, classifier and level of recognition After comparing these factors we concluded that Locally Normalized Harris Corner Strengths (LHNS performs best as compared to other techniques. LHNS uses Bayes and K-NN classification approaches for vehicle classification. It extracts information from frontal view of vehicles for vehicle make and model recognition.

  12. Comparative nutritional compositions and proteomics analysis of transgenic Xa21 rice seeds compared to conventional rice.

    Science.gov (United States)

    Gayen, Dipak; Paul, Soumitra; Sarkar, Sailendra Nath; Datta, Swapan K; Datta, Karabi

    2016-07-15

    Transgenic rice expressing the Xa21 gene have enhanced resistant to most devastating bacterial blight diseases caused by Xanthomonas oryzae pv. oryzae (Xoo). However, identification of unintended modifications, owing to the genetic modification, is an important aspect of transgenic crop safety assessment. In this study, the nutritional compositions of seeds from transgenic rice plants expressing the Xa21 gene were compared against non-transgenic rice seeds. In addition, to detect any changes in protein translation levels as a result of Xa21 gene expression, rice seed proteome analyses were also performed by two-dimensional gel electrophoresis. No significant differences were found in the nutritional compositions (proximate components, amino acids, minerals, vitamins and anti-nutrients) of the transgenic and non-transgenic rice seeds. Although gel electrophoresis identified 11 proteins that were differentially expressed between the transgenic and non-transgenic seed, only one of these (with a 20-fold up-regulation in the transgenic seed) shows nutrient reservoir activity. No new toxins or allergens were detected in the transgenic seeds.

  13. Cummins MD & HD Accessory Hybridization CRADA -Annual Report FY15

    Energy Technology Data Exchange (ETDEWEB)

    Deter, Dean D. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2015-10-01

    There are many areas of MD and HD vehicles that can be improved by new technologies and optimized control strategies. Component optimization and idle reduction need to be addressed, this is best done by a two part approach that includes selecting the best component technology, and/or architecture, and optimized controls that are vehicle focused. While this is a common focus in the light duty industry it has been gaining momentum in the MD and HD market as the market gets more competitive and the regulations become more stringent. When looking into systems optimization and idle reduction technologies, affected vehicle systems must first be considered, and if possible included in the new architecture to get the most benefit out of these new capabilities. Typically, when looking into idle reduction or component optimization for MD/HD, the vehicle s accessories become a prime candidate for electrification or hybridization. While this has already been studied on light duty vehicles (especially on hybrids and electric vehicles) it has not made any head way or market penetration in most MD and HD applications. If hybrids and electric MD and HD vehicles begin to break into the market this would be a necessary step into the ability to make those vehicles successful by allowing for independent, optimized operation separate from the engine.

  14. Comparative genomic analysis as a tool for biologicaldiscovery

    Energy Technology Data Exchange (ETDEWEB)

    Nobrega, Marcelo A.; Pennacchio, Len A.

    2003-03-30

    Biology is a discipline rooted in comparisons. Comparative physiology has assembled a detailed catalogue of the biological similarities and differences between species, revealing insights into how life has adapted to fill a wide-range of environmental niches. For example, the oxygen and carbon dioxide carrying capacity of vertebrate has evolved to provide strong advantages for species respiring at sea level, at high elevation or within water. Comparative- anatomy, -biochemistry, -pharmacology, -immunology and -cell biology have provided the fundamental paradigms from which each discipline has grown.

  15. Comparative analysis of two and three marker immunohistochemical cocktails in the diagnosis of prostata carcinoma

    DEFF Research Database (Denmark)

    Dabir, Parag Deepak; Ottosen, Peter; Hamilton-Dutoit, Stephen Jacques;

    2013-01-01

    Comparative analysis of two and three marker immunohistochemical cocktails in the diagnosis of prostata carcinoma......Comparative analysis of two and three marker immunohistochemical cocktails in the diagnosis of prostata carcinoma...

  16. Comparative analysis of two and three marker immunohistochemical cocktails in the diagnosis of prostata carcinoma

    DEFF Research Database (Denmark)

    Dabir, Parag Deepak; Ottosen, Peter; Hamilton-Dutoit, Stephen Jacques;

    2012-01-01

    Comparative analysis of two and three marker immunohistochemical cocktails in the diagnosis of prostata carcinoma......Comparative analysis of two and three marker immunohistochemical cocktails in the diagnosis of prostata carcinoma...

  17. Comparative analysis of actigraphy performance in healthy young subjects

    Directory of Open Access Journals (Sweden)

    Giannina J. Bellone

    2016-10-01

    Although data accessibility and ease of use was very different for the diverse devices, there were no significant differences for sleep onset, total sleep time and sleep efficiency recordings, where applicable. In conclusion, depending on the type of study and analysis desired (as well as cost and compliance of use, we propose some relative advantages for the different actigraphy/temperature recording devices.

  18. Comparative proteomic analysis of human pancreatic juice : Methodological study

    NARCIS (Netherlands)

    Zhou, Lu; Lu, ZhaoHui; Yang, AiMing; Deng, RuiXue; Mai, CanRong; Sang, XinTing; Faber, Klaas Nico; Lu, XingHua

    Pancreatic cancer is the most lethal of all the common malignancies. Markers for early detection of this disease are urgently needed. Here, we optimized and applied a proteome analysis of human pancreatic juice to identify biomarkers for pancreatic cancer. Pancreatic juice samples, devoid of blood

  19. Transcriptome profiling and comparative analysis of Panax ginseng adventitious roots

    Directory of Open Access Journals (Sweden)

    Murukarthick Jayakodi

    2014-10-01

    Conclusion: This study will provide a comprehensive insight into the transcriptome of ginseng adventitious roots, and a way for successful transcriptome analysis and profiling of resource plants with less genomic information. The transcriptome profiling data generated in this study are available in our newly created adventitious root transcriptome database (http://im-crop.snu.ac.kr/transdb/index.php for public use.

  20. Comparative proteomic analysis of human pancreatic juice : Methodological study

    NARCIS (Netherlands)

    Zhou, Lu; Lu, ZhaoHui; Yang, AiMing; Deng, RuiXue; Mai, CanRong; Sang, XinTing; Faber, Klaas Nico; Lu, XingHua

    2007-01-01

    Pancreatic cancer is the most lethal of all the common malignancies. Markers for early detection of this disease are urgently needed. Here, we optimized and applied a proteome analysis of human pancreatic juice to identify biomarkers for pancreatic cancer. Pancreatic juice samples, devoid of blood o

  1. Comparative proteomic analysis of human pancreatic juice : Methodological study

    NARCIS (Netherlands)

    Zhou, Lu; Lu, ZhaoHui; Yang, AiMing; Deng, RuiXue; Mai, CanRong; Sang, XinTing; Faber, Klaas Nico; Lu, XingHua

    2007-01-01

    Pancreatic cancer is the most lethal of all the common malignancies. Markers for early detection of this disease are urgently needed. Here, we optimized and applied a proteome analysis of human pancreatic juice to identify biomarkers for pancreatic cancer. Pancreatic juice samples, devoid of blood o

  2. Comparative proteomic analysis of human pancreatic juice: Methodological study

    NARCIS (Netherlands)

    Zhou, Lu; Lu, Z.H.; Yang, A.M.; Deng, R.X.; Mai, C.R.; Sang, X.T.; Faber, Klaas Nico; Lu, X.H.

    2007-01-01

    Pancreatic cancer is the most lethal of all the common malignancies. Markers for early detection of this disease are urgently needed. Here, we optimized and applied a proteome analysis of human pancreatic juice to identify biomarkers for pancreatic cancer. Pancreatic juice samples, devoid of blood o

  3. Comparative analysis of African swine fever virus genotypes and serogroups.

    Science.gov (United States)

    Malogolovkin, Alexander; Burmakina, Galina; Titov, Ilya; Sereda, Alexey; Gogin, Andrey; Baryshnikova, Elena; Kolbasov, Denis

    2015-02-01

    African swine fever virus (ASFV) causes highly lethal hemorrhagic disease among pigs, and ASFV's extreme antigenic diversity hinders vaccine development. We show that p72 ASFV phylogenetic analysis does not accurately define ASFV hemadsorption inhibition assay serogroups. Thus, conventional ASFV genotyping cannot discriminate between viruses of different virulence or predict efficacy of a specific ASFV vaccine.

  4. Comparative analysis of Medicare spending for medical imaging: sustained dramatic slowdown compared with other services.

    Science.gov (United States)

    Lee, David W; Duszak, Richard; Hughes, Danny R

    2013-12-01

    The purpose of this study was to assess trends in Medicare spending growth for medical imaging relative to other services and the Deficit Reduction Act (DRA). We calculated per-beneficiary Part B Medicare medical imaging expenditures for three-digit Berenson-Eggers Type of Service (BETOS) categories using Physician Supplier Procedure Summary Master Files for 32 million beneficiaries from 2000 to 2011. We adjusted BETOS categories to address changes in coding and payment policy and excluded categories with 2011 aggregate spending less than $500 million. We computed and ranked compound annual growth rates over three periods: pre-DRA (2000-2005), DRA transition period (2005-2007), and post-DRA (2007-2011). Forty-four modified BETOS categories fulfilled the inclusion criteria. Between 2000 and 2006, Medicare outlays for nonimaging services grew by 6.8% versus 12.0% for imaging services. In the ensuing 5 years, annual growth in spending for nonimaging continued at 3.6% versus a decline of 3.5% for imaging. Spending growth for all services during the pre-DRA, DRA, and post-DRA periods were 7.8%, 3.8%, and 2.9 compared with 15.0%, -3.4%, and -2.2% for advanced imaging services. Advanced imaging was among the fastest growing categories of Medicare services in the early 2000s but was in the bottom 2% of spending categories in 2011. Between 2007 and 2011, the fastest growing service categories were evaluation and management services with other specialists (29.1%), nursing home visits (11.2%), anesthesia (9.1%), and other ambulatory procedures (9.0%). Slowing volume growth and massive Medicare payment cuts have left medical imaging near the bottom of all service categories contributing to growth in Medicare spending.

  5. Child Sexual Abuse and Adolescent Prostitution: A Comparative Analysis.

    Science.gov (United States)

    Seng, Magnus J.

    1989-01-01

    Explored relationship between sexual abuse and adolescent prostitution by comparing 70 sexually abused children with 35 prostitution-involved children on 22 variables. Findings suggest that relationship is not direct, but involves runaway behavior as intervening variable. Concludes that it is not so much sexual abuse that leads to prostitution, as…

  6. Comparative analysis of salivary zinc level in recurrent herpes labialis

    Directory of Open Access Journals (Sweden)

    Faezeh Khozeimeh

    2012-01-01

    Conclusion: According to the results, zinc level is significantly lower in acute phase than in convalescent phase and significantly lower in both phases compared to healthy individuals,so determination of serum zinc level and prescribing zinc complement in low serum status has both treatmental and preventive effects in RHL patients.

  7. Comparative analysis of drought resistance genes in Arabidopsis and rice

    NARCIS (Netherlands)

    Trijatmiko, K.R.

    2005-01-01

    Keywords: rice, Arabidopsis, drought, genetic mapping,microarray, transcription factor, AP2/ERF, SHINE, wax, stomata, comparative genetics, activation tagging, Ac/Ds, En/IThis thesis describes the use of genomics information and tools from Arabidopsis and

  8. Comparative analysis of endurance of not hearing and hearing students

    Directory of Open Access Journals (Sweden)

    Iwańska Dagmara

    2013-11-01

    Full Text Available Study aim: Sport participation is important for deaf children, as participants experience physical, psychological and social benefits [23]. This study is a summary of four year’s researches on the endurance level of deaf and well hearing girls and boys. The aim of this study was to compare endurance of not hearing and hearing students.

  9. High resolution microarray comparative genomic hybridisation analysis using spotted oligonucleotides.

    NARCIS (Netherlands)

    Carvalho, B; Ouwerkerk, E; Meijer, G.A.; Ylstra, B.

    2004-01-01

    BACKGROUND: Currently, comparative genomic hybridisation array (array CGH) is the method of choice for studying genome wide DNA copy number changes. To date, either amplified representations of bacterial artificial chromosomes (BACs)/phage artificial chromosomes (PACs) or cDNAs have been spotted as

  10. Reference Management Software: A Comparative Analysis of Four Products

    Science.gov (United States)

    Gilmour, Ron; Cobus-Kuo, Laura

    2011-01-01

    Reference management (RM) software is widely used by researchers in the health and natural sciences. Librarians are often called upon to provide support for these products. The present study compares four prominent RMs: CiteULike, RefWorks, Mendeley, and Zotero, in terms of features offered and the accuracy of the bibliographies that they…

  11. Critical Citizenship Education in England and France: A Comparative Analysis

    Science.gov (United States)

    Johnson, Laura; Morris, Paul

    2012-01-01

    The promotion of "critical citizenship" has become a key objective of official school curricula around the world. Using an analytic framework developed by the authors, this paper identifies the diverse conceptions of critical citizenship that are promoted, by comparing the official school curricula for citizenship in England and France.…

  12. Aborted and refractory status epilepticus in children : A comparative analysis

    NARCIS (Netherlands)

    Lambrechtsen, Florise A. C. P.; Buchhalter, Jeffrey R.

    Purpose: The aims of this retrospective study were: (1) to compare the demographics, clinical characteristics, etiology, and EEG findings of status epilepticus aborted with medication (ASE) and refractory status epilepticus (RSE), (2) to describe the treatment response of status epilepticus (SE),

  13. Comparative analysis of equalization methods for SC-FDMA

    DEFF Research Database (Denmark)

    Dogadaev, Anton Konstantinovich; Kozlov, Alexander; Ukhanova, Ann

    2010-01-01

    be applied to find the appropriate equalization algorithm to be used in the Uplink channel of the LTE – the famous standard in 4G telecommunications. Simulation results in the end in this paper show bit error ratio (BER) and modulation error ratio (MER) for compared schemes....

  14. Regulation of pharmacists: a comparative law and economics analysis

    NARCIS (Netherlands)

    Philipsen, N.J.

    2013-01-01

    This paper discusses the regulation of pharmacists from an economic perspective, focusing on licensing, price and fee regulation, advertising restrictions and rules on exercise of the profession, and restrictions on business structure. A comparative overview is presented of the most common forms of

  15. A comparative analysis of mail and internet surveys

    Science.gov (United States)

    Benjamin D. Poole; David K. Loomis

    2010-01-01

    Th e field of survey research is constantly evolving with the introduction of new technologies. Each new mini-revolution brings criticism about the accuracy of the new survey method. The latest development in the survey research field has been increased reliance on Internet surveys. This paper compares data collected through a mixed-mode (mail and Internet) survey of...

  16. A Comparative Analysis of Entrepreneur and College Business Student Values.

    Science.gov (United States)

    Solomon, George T.; Fernald, Jr., Lloyd W.

    1990-01-01

    The study compared values of 123 senior-level college business students and 400 Florida entrepreneurs. Findings indicated value differences between entrepreneurs and students, as well as between female entrepreneurs and female students, but few differences between male entrepreneurs and male students. (DB)

  17. Analysis and compare of location technologies supporting LBS

    Institute of Scientific and Technical Information of China (English)

    CAO Hai-bing; XIA Ying; GE Jun-wei; BAE Hae-young

    2004-01-01

    Location technology is the key part of location based service. Different technologies have different accuracy, modifying to network and cost of operating. Also these technologies have limitation to network. This paper compares existing popular location technologies and gives some suggestions about choosing of location technologies in GSM and CDMA systems.

  18. Environment Reporters and U.S. Journalists: A Comparative Analysis

    Science.gov (United States)

    Sachsman, David B.; Simon, James; Valenti, JoAnn Myer

    2008-01-01

    This study provides baseline data regarding environment reporters in the twenty-first century, and then compares this baseline information about a specialized journalism beat to existing studies of U.S. journalists in general. This comparison between 652 environmental journalists working at daily newspapers and television stations and more than…

  19. Child Sexual Abuse and Adolescent Prostitution: A Comparative Analysis.

    Science.gov (United States)

    Seng, Magnus J.

    1989-01-01

    Explored relationship between sexual abuse and adolescent prostitution by comparing 70 sexually abused children with 35 prostitution-involved children on 22 variables. Findings suggest that relationship is not direct, but involves runaway behavior as intervening variable. Concludes that it is not so much sexual abuse that leads to prostitution, as…

  20. Comparative analysis of utilizability curves for different aggregation periods

    Energy Technology Data Exchange (ETDEWEB)

    Jurado, M.; Caridad, J.M. [Dept. Estadistica, Univ. de Cordoba (Spain); Ruiz, V. [Dept. Termodinamica, Univ. de Sevilla (Spain)

    1996-12-31

    Long term utilizability functions corresponding to different aggregation periods are compared for radiation data measured at Seville, Spain. The aggregation intervals are daily, hourly and each five minutes, and the utilizability is estimated using the distribution function of the clearness index observed over short time intervals. (orig.)

  1. A Comparative Analysis of Teenagers Who Smoke Different Cigarette Brands.

    Science.gov (United States)

    Enomoto, Carl E.

    2000-01-01

    Analyzes and compares the survey responses of teenagers who smoke different cigarette brands, specifically Marlboro, Camel, and Newport. Differences were seen across brands but teen smokers had similar opinions about quitting. Given the differences across brands, more flexible approaches may be needed to address teenage smoking. (Author/MKA)

  2. SILAC-based comparative analysis of pathogenic Escherichia coli secretomes

    DEFF Research Database (Denmark)

    Boysen, Anders; Borch, Jonas; Krogh, Thøger Jensen

    2015-01-01

    . In this study, we grew the pathogenic strains ETEC H10407, AIEC LF82 and the non-pathogenic reference strain E. coli K-12 MG1655 in parallel and used SILAC to compare protein levels in OMVs and culture supernatant. We have identified well-known virulence factors from both AIEC and ETEC, thus validating our...

  3. Reference Management Software: A Comparative Analysis of Four Products

    Science.gov (United States)

    Gilmour, Ron; Cobus-Kuo, Laura

    2011-01-01

    Reference management (RM) software is widely used by researchers in the health and natural sciences. Librarians are often called upon to provide support for these products. The present study compares four prominent RMs: CiteULike, RefWorks, Mendeley, and Zotero, in terms of features offered and the accuracy of the bibliographies that they…

  4. Sociological analysis and comparative education: A brief bibliographical background

    Science.gov (United States)

    Bash, Leslie

    1981-12-01

    The bibliography cites English language material at the intersection of two fields of study: sociology of education and comparative education. The collection of material is biased (a) toward the general reader rather than the specialist already working in the area, and (b) toward the identification of overlap between the two fields of study.

  5. Sustainability of Social Programs: A Comparative Case Study Analysis

    Science.gov (United States)

    Savaya, Riki; Spiro, Shimon; Elran-Barak, Roni

    2008-01-01

    The article reports on the findings of a comparative case study of six projects that operated in Israel between 1980 and 2000. The study findings identify characteristics of the programs, the host organizations, and the social and political environment, which differentiated programs that are sustained from those that are not. The findings reaffirm…

  6. Aborted and refractory status epilepticus in children : A comparative analysis

    NARCIS (Netherlands)

    Lambrechtsen, Florise A. C. P.; Buchhalter, Jeffrey R.

    2008-01-01

    Purpose: The aims of this retrospective study were: (1) to compare the demographics, clinical characteristics, etiology, and EEG findings of status epilepticus aborted with medication (ASE) and refractory status epilepticus (RSE), (2) to describe the treatment response of status epilepticus (SE), an

  7. Comparative analysis of wind energy production in Oklahoma

    Science.gov (United States)

    Ermilova, Ekaterina Alexeevna

    Scope and method of study. In the last decades humanity has realized the necessity of developing alternative energy sources for its efficient economic development and simple survival in the future. During the last 30 years major improvements were made in renewable energy technologies and they started to become competitive with traditional energy sources (fossil fuels), especially with consideration of external costs. Among the renewable energy sources, wind energy is one of the cheapest and fastest growing nowadays. Oklahoma is a very promising site for wind energy development considering its excellent wind resources. Developing wind energy can allow not only electricity production for in-state consumption, but also exporting to other states. The development of wind energy could encourage economic growth with very few adverse impacts on the environment. However, traditional energy sources are still the cheapest and, thus, the introduction of the wind energy in Oklahoma should be critically analyzed from economic, ecological and social points of view. The goal of this study is to conduct analysis of wind energy electricity production in Oklahoma on the four main stages: (1) Investment Analysis from Private Perspective: Calculate present value net benefits for wind energy and traditional energy (natural gas), make sure that both of them are positive. (2) Investment Analysis from Social Perspective: Evaluate present value net private benefits (PVNPB) and present value net social benefit from both projects (PVNSB). (3) Government Subsidy Analysis: recognize the necessity of the subsidies and evaluate the amount of subsidies if any. (4) Investment Analysis from a Geographic Perspective: determine economic feasibility of wind power generation for 77 Oklahoma counties. Findings and conclusions. The final output of the study is the recommendations concerning wind energy development in Oklahoma with consideration of economic efficiency, ecological and social impacts. Study

  8. YersiniaBase: a genomic resource and analysis platform for comparative analysis of Yersinia.

    Science.gov (United States)

    Tan, Shi Yang; Dutta, Avirup; Jakubovics, Nicholas S; Ang, Mia Yang; Siow, Cheuk Chuen; Mutha, Naresh Vr; Heydari, Hamed; Wee, Wei Yee; Wong, Guat Jah; Choo, Siew Woh

    2015-01-16

    Yersinia is a Gram-negative bacteria that includes serious pathogens such as the Yersinia pestis, which causes plague, Yersinia pseudotuberculosis, Yersinia enterocolitica. The remaining species are generally considered non-pathogenic to humans, although there is evidence that at least some of these species can cause occasional infections using distinct mechanisms from the more pathogenic species. With the advances in sequencing technologies, many genomes of Yersinia have been sequenced. However, there is currently no specialized platform to hold the rapidly-growing Yersinia genomic data and to provide analysis tools particularly for comparative analyses, which are required to provide improved insights into their biology, evolution and pathogenicity. To facilitate the ongoing and future research of Yersinia, especially those generally considered non-pathogenic species, a well-defined repository and analysis platform is needed to hold the Yersinia genomic data and analysis tools for the Yersinia research community. Hence, we have developed the YersiniaBase, a robust and user-friendly Yersinia resource and analysis platform for the analysis of Yersinia genomic data. YersiniaBase has a total of twelve species and 232 genome sequences, of which the majority are Yersinia pestis. In order to smooth the process of searching genomic data in a large database, we implemented an Asynchronous JavaScript and XML (AJAX)-based real-time searching system in YersiniaBase. Besides incorporating existing tools, which include JavaScript-based genome browser (JBrowse) and Basic Local Alignment Search Tool (BLAST), YersiniaBase also has in-house developed tools: (1) Pairwise Genome Comparison tool (PGC) for comparing two user-selected genomes; (2) Pathogenomics Profiling Tool (PathoProT) for comparative pathogenomics analysis of Yersinia genomes; (3) YersiniaTree for constructing phylogenetic tree of Yersinia. We ran analyses based on the tools and genomic data in YersiniaBase and the

  9. Hazardous Waste Minimization Assessment: Fort Meade, MD

    Science.gov (United States)

    1991-01-01

    Eliminate Generation Reduce Generation RUSand ROCOVerY Treatment FRjiue Disposal FIgure 1. Wadte IAIikaflon hierarchy. 21 ar= z = OPZPATIO PRAwcgCS 0 waSt...evaluation o eonomic evalu~ationt a *eLeCt options fox Z ~mleatatiaa Figmr 4. Hawadous waie inniizadion amnen and feadblty analysis procedure 25 3 FORT MEADE...Waste Generation at FORSCOM Installations’ Quam4ty of Wmt Quanity of Wast Quantity of Wow Geerated Generated Osae Generated Of ske Imtallatoe (metri

  10. Comparative analysis of imaging configurations and objectives for Fourier microscopy

    CERN Document Server

    Kurvits, Jonathan A; Zia, Rashid

    2015-01-01

    Fourier microscopy is becoming an increasingly important tool for the analysis of optical nanostructures and quantum emitters. However, achieving quantitative Fourier space measurements requires a thorough understanding of the impact of aberrations introduced by optical microscopes, which have been optimized for conventional real-space imaging. Here, we present a detailed framework for analyzing the performance of microscope objectives for several common Fourier imaging configurations. To this end, we model objectives from Nikon, Olympus, and Zeiss using parameters that were inferred from patent literature and confirmed, where possible, by physical disassembly. We then examine the aberrations most relevant to Fourier microscopy, including the alignment tolerances of apodization factors for different objective classes, the effect of magnification on the modulation transfer function, and vignetting-induced reductions of the effective numerical aperture for wide-field measurements. Based on this analysis, we ide...

  11. Comparing Distributions of Environmental Outcomes for Regulatory Environmental Justice Analysis

    Directory of Open Access Journals (Sweden)

    Glenn Sheriff

    2011-05-01

    Full Text Available Economists have long been interested in measuring distributional impacts of policy interventions. As environmental justice (EJ emerged as an ethical issue in the 1970s, the academic literature has provided statistical analyses of the incidence and causes of various environmental outcomes as they relate to race, income, and other demographic variables. In the context of regulatory impacts, however, there is a lack of consensus regarding what information is relevant for EJ analysis, and how best to present it. This paper helps frame the discussion by suggesting a set of questions fundamental to regulatory EJ analysis, reviewing past approaches to quantifying distributional equity, and discussing the potential for adapting existing tools to the regulatory context.

  12. Comparative Analysis of Dayside Reconnection Models in Global Magnetosphere Simulations

    CERN Document Server

    Komar, C M; Cassak, P A

    2015-01-01

    We test and compare a number of existing models predicting the location of magnetic reconnection at Earth's dayside magnetopause for various solar wind conditions. We employ robust image processing techniques to determine the locations where each model predicts reconnection to occur. The predictions are then compared to the magnetic separators, the magnetic field lines separating different magnetic topologies. The predictions are tested in distinct high-resolution simulations with interplanetary magnetic field (IMF) clock angles ranging from 30 to 165 degrees in global magnetohydrodynamic simulations using the three-dimensional Block-Adaptive Tree Solarwind Roe-type Upwind Scheme (BATS-R-US) code with a uniform resistivity, although the described techniques can be generally applied to any self-consistent magnetosphere code. Additional simulations are carried out to test location model dependence on IMF strength and dipole tilt. We find that most of the models match large portions of the magnetic separators wh...

  13. Comparative analysis of isotropic diffusion weighted imaging sequences

    Science.gov (United States)

    Vellmer, Sebastian; Stirnberg, Rüdiger; Edelhoff, Daniel; Suter, Dieter; Stöcker, Tony; Maximov, Ivan I.

    2017-02-01

    Visualisation of living tissue structure and function is a challenging problem of modern imaging techniques. Diffusion MRI allows one to probe in vivo structures on a micrometer scale. However, conventional diffusion measurements are time-consuming procedures, because they require several measurements with different gradient directions. Considerable time savings are therefore possible by measurement schemes that generate an isotropic diffusion weighting in a single shot. Multiple approaches for generating isotropic diffusion weighting are known and have become very popular as useful tools in clinical research. Thus, there is a strong need for a comprehensive comparison of different isotropic weighting approaches. In the present work we introduce two new sequences based on simple (co)sine modulations and compare their performance to established q-space magic-angle spinning sequences and conventional DTI, using a diffusion phantom assembled from microcapillaries and in vivo experiments at 7 T. The advantages and disadvantages of all compared schemes are demonstrated and discussed.

  14. Comparative analysis of deterministic and probabilistic fracture mechanical assessment tools

    Energy Technology Data Exchange (ETDEWEB)

    Heckmann, Klaus [Gesellschaft fuer Anlagen- und Reaktorsicherheit (GRS) gGmbH, Koeln (Germany); Saifi, Qais [VTT Technical Research Centre of Finland, Espoo (Finland)

    2016-11-15

    Uncertainties in material properties, manufacturing processes, loading conditions and damage mechanisms complicate the quantification of structural reliability. Probabilistic structure mechanical computing codes serve as tools for assessing leak- and break probabilities of nuclear piping components. Probabilistic fracture mechanical tools were compared in different benchmark activities, usually revealing minor, but systematic discrepancies between results of different codes. In this joint paper, probabilistic fracture mechanical codes are compared. Crack initiation, crack growth and the influence of in-service inspections are analyzed. Example cases for stress corrosion cracking and fatigue in LWR conditions are analyzed. The evolution of annual failure probabilities during simulated operation time is investigated, in order to identify the reasons for differences in the results of different codes. The comparison of the tools is used for further improvements of the codes applied by the partners.

  15. Human myelin proteome and comparative analysis with mouse myelin

    OpenAIRE

    Ishii, Akihiro; Dutta, Ranjan; Wark, Greg M.; Hwang, Sun-Il; Han, David K.; Trapp, Bruce D.; Pfeiffer, Steven E.; Bansal, Rashmi

    2009-01-01

    Myelin, formed by oligodendrocytes (OLs) in the CNS, is critical for axonal functions, and its damage leads to debilitating neurological disorders such as multiple sclerosis. Understanding the molecular mechanisms of myelination and the pathogenesis of human myelin disease has been limited partly by the relative lack of identification and functional characterization of the repertoire of human myelin proteins. Here, we present a large-scale analysis of the myelin proteome, using the shotgun ap...

  16. Application of next-generation sequencing for comparative transcriptome analysis

    OpenAIRE

    Shin, Heesun

    2010-01-01

    I have used novel whole transcriptome sequence data generated from massively parallel high-throughput next generation sequencing technologies, namely 454 pyrosequencing and Illumina sequencing, to perform comparative transcriptome analyses of C. elegans populations in specific biological conditions and developmental stages. Firstly, I have conducted transcriptome profiling of C. elegans in its first larval (L1) stage using data generated from the Roche 454 sequencing platform. I have used thi...

  17. Compare Analysis between Chinese and Indonesian Phonetics and teaching suggestions

    Directory of Open Access Journals (Sweden)

    Lydia Anggreani

    2014-05-01

    Full Text Available With further development of friendly relations between China and Indonesia, coupled with a growing number of Indonesian Chinese, learning Chinese language is getting more important. Article compared Chinese and Indonesian voice and showed the voice of the Chinese language. Moreover, article provided ideas for Chinese phonetics teaching and for Indonesian students in learning Chinese pronunciation. In addition, article puts forward suggestions in order to improve foreign language teaching.

  18. Comparative analysis of team work in kindergartens and schools

    OpenAIRE

    Bjelajac, Nataša

    2015-01-01

    The thesis work I determined and compared the team work in kindergarten and school. I was interested in cooperation between a preschool teacher and an assistant preschool teacher and a primary school teacher and a preschool teacher at school. The participants and members of the team directly share roles and they are equivalent to each other. However, it is necessary to emphasize their difference in knowledge, skills and abilities. They do not have the same level of competence, motivation and ...

  19. New World and Mediterranean wine tourism: A comparative analysis

    OpenAIRE

    Charters, Steve

    2010-01-01

    This is a theoretical paper providing a comparative overview of wine tourism in the New World and Europe – particularly the Mediterranean region. The review is timely because while there has been substantial wine tourism research in Anglophone countries, less has occurred in Europe, despite the fact that it has such a long history of wine production. The paper suggests a series of differences between the two areas based on both structural factors affecting the context in which wine is produce...

  20. Comparative analysis of alternative fuels in detonation combustion

    OpenAIRE

    Azami, M. H.; Savill, Mark A.

    2016-01-01

    Detonation combustion prominently exhibits high thermodynamic efficiency which leads to better performance. As compared to the conventionally used isobaric heat addition in a Brayton cycle combustor, detonation uses a novel isochoric Humphrey cycle which utilises shocks and detonation waves to provide pressure-rise combustion. Such unsteady combustion has already been explored in wave rotor, pulse detonation engine and rotating detonation engine configurations as alternative technologies for ...

  1. N-terminal Protein Processing: A Comparative Proteogenomic Analysis*

    OpenAIRE

    Bonissone, Stefano; Gupta, Nitin; Romine, Margaret; Bradshaw, Ralph A.; Pavel A Pevzner

    2013-01-01

    N-terminal methionine excision (NME) and N-terminal acetylation (NTA) are two of the most common protein post-translational modifications. NME is a universally conserved activity and a highly specific mechanism across all life forms. NTA is very common in eukaryotes but occurs rarely in prokaryotes. By analyzing data sets from yeast, mammals and bacteria (including 112 million spectra from 57 bacterial species), the largest comparative proteogenomics study to date, it is shown that previous a...

  2. Demographic characteristics of exploited tropical lutjanids: a comparative analysis

    OpenAIRE

    Heupel, Michelle R.; Williams, Ashley A.; David J. Welch; Campbell R. Davies; Penny, Ann; Jacob P Kritzer; Marriott, Ross J.; Bruce D. Mapstone

    2010-01-01

    Demographic parameters from seven exploited coral reef lutjanid species were compared as a case study of the implications of intrafamily variation in life histories for multispecies harvest management. Modal lengths varied by 4 cm among four species (Lutjanus fulviflamma, L. vitta, L. carponotatus, L. adetii), which were at least 6 cm smaller than the modal lengths of the largest species (L. gibbus, Symphorus nematophorus, Aprion virescens). Modal ages, indicating ages of full selection to...

  3. Endoscopic versus external approach dacryocystorhinostomy: A comparative analysis

    Directory of Open Access Journals (Sweden)

    Rinki Saha

    2013-01-01

    Full Text Available Background: Dacryocystorhinostomy (DCR consists of creating a lacrimal drainage pathway to the nasal cavity to restore permanent drainage of previously obstructed excreting system. Aim: To compare the result and advantages of both endonasal endoscopic and external DCR regarding the patency rate, patient compliance and complications. Study Design: Prospective non-randomized comparative study. Materials and Methods: Study was conducted for 16 months duration in a teaching hospital with 50 cases of endoscopic and 30 cases of external DCR with a follow-up of minimum 6 months. Data regarding surgical outcome and complications were analysed and compared using χ2 test. Results: Total 72 patients were included in the study with six having bilateral involvement, out of which 20 were male and 52 were female. The mean age for endoscopic and external DCR was 33.6 years and 46.0 years, respectively. Right eye (63.8% was involved more commonly than left eye (36.2%. Epiphora was the commonest presenting symptom (63.7%. Mean duration of surgery was much lengthier in external (mean 119.6 minutes than endoscopic (mean 49.0 minutes DCR. Bleeding was the most common immediate postoperative complication seen in 33.3% and 10.0% of external and endoscopic DCR cases, respectively. Primary surgical success rate was 90% and 96.7% for endoscopic and external DCR, respectively ( P = 0.046. Among the endoscopic DCR group, four patients underwent revision surgery giving a total successful surgical outcome of 98% at third month of follow-up. However, at 6 month of follow-up, success rate was 92% for endoscopic DCR and 93.3% for external DCR. The difference was not statistically significant ( P = 0.609. Conclusion: Intranasal endoscopic DCR is a simple, minimally invasive, day care procedure and had comparable result with conventional external DCR.

  4. CoMD Implementation Suite in Emerging Programming Models

    Energy Technology Data Exchange (ETDEWEB)

    2014-09-23

    CoMD-Em is a software implementation suite of the CoMD [4] proxy app using different emerging programming models. It is intended to analyze the features and capabilities of novel programming models that could help ensure code and performance portability and scalability across heterogeneous platforms while improving programmer productivity. Another goal is to provide the authors and venders with some meaningful feedback regarding the capabilities and limitations of their models. The actual application is a classical molecular dynamics (MD) simulation using either the Lennard-Jones method (LJ) or the embedded atom method (EAM) for primary particle interaction. The code can be extended to support alternate interaction models. The code is expected ro run on a wide class of heterogeneous hardware configurations like shard/distributed/hybrid memory, GPU's and any other platform supported by the underlying programming model.

  5. Comparative analysis of imaging configurations and objectives for Fourier microscopy.

    Science.gov (United States)

    Kurvits, Jonathan A; Jiang, Mingming; Zia, Rashid

    2015-11-01

    Fourier microscopy is becoming an increasingly important tool for the analysis of optical nanostructures and quantum emitters. However, achieving quantitative Fourier space measurements requires a thorough understanding of the impact of aberrations introduced by optical microscopes that have been optimized for conventional real-space imaging. Here we present a detailed framework for analyzing the performance of microscope objectives for several common Fourier imaging configurations. To this end, we model objectives from Nikon, Olympus, and Zeiss using parameters that were inferred from patent literature and confirmed, where possible, by physical disassembly. We then examine the aberrations most relevant to Fourier microscopy, including the alignment tolerances of apodization factors for different objective classes, the effect of magnification on the modulation transfer function, and vignetting-induced reductions of the effective numerical aperture for wide-field measurements. Based on this analysis, we identify an optimal objective class and imaging configuration for Fourier microscopy. In addition, the Zemax files for the objectives and setups used in this analysis have been made publicly available as a resource for future studies.

  6. Comparative analysis on the adoption of innovation in furniture companies

    Directory of Open Access Journals (Sweden)

    Rodolfo Reinaldo Hermes Petter

    2013-06-01

    Full Text Available This study aimed to identify factors categorical adoption of innovation in three main groups: in products, processes and administrative procedures in a group of micro and small enterprises in the furniture sector, located in the middle western state of Santa Catarina. In particular, the study sought to compare the data of a survey conducted by SEBRAE (2009 observed the same factors present innovation in micro and small businesses scattered throughout the Brazilian territory, in order to compare the national stage for the adoption of innovation in relation the scenario presented by the companies studied in this research. Data collection took place by means of a questionnaire consisting of multiple choice closed questions related to the three aforementioned groups of innovation, which was answered by managers of the constituent companies of the group studied. As a result of this research, it was found that the adoption of innovation in product development is the most important aspect in the surveyed companies. It was also found that they seek to adopt the innovation with the objective of entering new markets. However, the main difficulty in adopting innovation were identified lack of skilled labor, shortage and / or lack of access to technology and financial difficulties. Compared to general adoption of innovation by micro and small enterprises studied by SEBRAE (2009, the studied firms have a tendency to develop in the same direction.

  7. The knock-down of the expression of MdMLO19 reduces susceptibility to powdery mildew (Podosphaera leucotricha) in apple (Malus domestica).

    Science.gov (United States)

    Pessina, Stefano; Angeli, Dario; Martens, Stefan; Visser, Richard G F; Bai, Yuling; Salamini, Francesco; Velasco, Riccardo; Schouten, Henk J; Malnoy, Mickael

    2016-10-01

    Varieties resistant to powdery mildew (PM; caused by Podosphaera leucotricha) are a major component of sustainable apple production. Resistance can be achieved by knocking-out susceptibility S-genes to be singled out among members of the MLO (Mildew Locus O) gene family. Candidates are MLO S-genes of phylogenetic clade V up-regulated upon PM inoculation, such as MdMLO11 and 19 (clade V) and MdMLO18 (clade VII). We report the knock-down through RNA interference of MdMLO11 and 19, as well as the complementation of resistance with MdMLO18 in the Arabidopsis thaliana triple mlo mutant Atmlo2/6/12. The knock-down of MdMLO19 reduced PM disease severity by 75%, whereas the knock-down of MdMLO11, alone or in combination with MdMLO19, did not result in any reduction or additional reduction of susceptibility compared with MdMLO19 alone. The test in A. thaliana excluded a role for MdMLO18 in PM susceptibility. Cell wall appositions (papillae) were present in both PM-resistant and PM-susceptible plants, but were larger in resistant lines. No obvious negative phenotype was observed in plants with mlo genes knocked down. Apparently, MdMLO19 plays the pivotal role in apple PM susceptibility and its knock-down induces a very significant level of resistance. © 2016 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd.

  8. LHC MD 232: Longitudinal Impedance Evaluation

    CERN Document Server

    Esteban Muller, Juan; Baudrenghien, Philippe; Shaposhnikova, Elena; CERN. Geneva. ATS Department

    2017-01-01

    The aim of the MDstudies presented here was to evaluate the imaginary part of the longitudinal impedance of the LHC by means of synchrotron frequency shift measurements. Single bunches with similar longitudinal emittance but different intensities were studied at flat top. Based on the beam parameters, a maximum shift of about 0.2 Hz was expected between the different bunches. A detailed analysis still needs to be carried out to determine the measured synchrotron frequency shift. The measurements took place between 8:00 p.m. on 26th and 2:00 a.m. on 27th July 2016

  9. Comparative financial analysis of electricity utilities in West Africa

    Energy Technology Data Exchange (ETDEWEB)

    Fritsch, Remi, E-mail: fritschr@afd.fr [Centre d' Etudes Financieres, Economiques et Bancaires (CEFEB), BP 33401, 13567 Marseille cedex 02 (France)

    2011-10-15

    Access to electricity is a major issue in West Africa. Governments have a difficult equation to solve. They naturally seek to offer their people a cheap kWh. But they are constrained by a production based largely on oil and therefore highly volatile production costs. How to fix an acceptable tariff, taking into account the investment needs required to expand the network and increase production? This analysis should provide some answers. The study presented in this paper provides a financial analysis of electricity utilities in West Africa. It allows a comparison of performances on a number of key financial ratios related to operations (Earning Before Interest Taxes Debt and Amortization/sales, working capital requirement/sales, days of receivables or payables), investment (net fixed assets/gross fixed assets), bank financing (financial structure, debt/EBITDA, interest expense/EBITDA) and economic and financial returns (Return On Capital Employed, Return On Equity). The conclusion focuses on the growth opportunity that the electricity sector could represent for each country. But this opportunity may only materialize if the EBITDA margins are restored. The available options appear limited and must be assessed taking into account the context of each country: tariff increase, improvement of technical losses or diversification into means of production no longer based primarily on oil or gas. - Highlights: > The study provides a financial analysis of electricity distribution companies in West Africa. > The study highlights generally insufficient EBITDA margins. > The study raises the question of tariffs and contribution to Gross Domestic Product of the electricity sector. > The conclusion focuses on the growth opportunity that the electricity sector could represent for each country.

  10. Comparative Analysis of Volcanic Inflation—Deflation Cycles

    Science.gov (United States)

    Walwer, D.; Ghil, M.; Calais, E.

    2016-12-01

    GPS geodetic data together with INSAR images are often used to formulate kinematic models of the sources of volcanic deformations. The increasing amount of data now available allows one to produce time series that are several years long and thus capture continuously the history of volcanic deformations, in particular their nonlinear behavior. This information is highly valuable in helping understand the dynamics of volcanic systems.Nonlinear deformation signals are, however, difficult to extract from the background noise inherent in the GPS time series. It is also arduous to unravel the signal of interest from other nonlinear signals, such as the seasonal oscillations associated with mass variations in the atmosphere, the ocean, and the hydrological reservoirs. Here we use Multichannel Singular Spectrum Analysis (M-SSA) — an advanced, data-adaptive method for time series analysis that exploits simultaneously the temporal and spatial correlations of geophysical fields — to extract such deformation signals.We apply M-SSA to GPS data sets from four volcanoes: Akutan, Alaska; Okmok, Alaska; Westdahl, Alaska; and Piton de la Fournaise, La Reunion. Our analyses show that all four volcanoes share similar features in their deformation history, suggesting similarities in the dynamics that generate the inflation-deflation cycles. In particular, all four volcanic systems exhibit sawtooth-shaped oscillations with slow inflations followed by slower deflations, with time scales that vary from 6 months to 4 years. This relation of dynamical similarity is further highlighted by the phase portrait reconstruction of the four systems in the plane of deformation vs. rate-of-deformation, as obtained from the deformation signals extracted from the GPS time series using M-SSA.The inflating phase of these oscillations is followed by eruptions at Okmok volcano and at Piton de la Fournaise. These analysis results suggest that these volcanic inflation—deflation cycles are associated

  11. Comparative Convergence Analysis of Nonlinear AMLI-Cycle Multigrid

    Energy Technology Data Exchange (ETDEWEB)

    Hu, Xiaozhe [Pennsylvania State Univ., University Park, PA (United States). Dept. of Mathematics; Vassilevski, Panayot S. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Xu, Jinchao [Pennsylvania State Univ., University Park, PA (United States). Dept. of Mathematics

    2013-04-30

    The purpose of our paper is to provide a comprehensive convergence analysis of the nonlinear algebraic multilevel iteration (AMLI)-cycle multigrid (MG) method for symmetric positive definite problems. We show that the nonlinear AMLI-cycle MG method is uniformly convergent, based on classical assumptions for approximation and smoothing properties. Furthermore, under only the assumption that the smoother is convergent, we show that the nonlinear AMLI-cycle method is always better (or not worse) than the respective V-cycle MG method. Finally, numerical experiments are presented to illustrate the theoretical results.

  12. BayesMD: flexible biological modeling for motif discovery

    DEFF Research Database (Denmark)

    Tang, Man-Hung Eric; Krogh, Anders; Winther, Ole

    2008-01-01

    We present BayesMD, a Bayesian Motif Discovery model with several new features. Three different types of biological a priori knowledge are built into the framework in a modular fashion. A mixture of Dirichlets is used as prior over nucleotide probabilities in binding sites. It is trained on trans......We present BayesMD, a Bayesian Motif Discovery model with several new features. Three different types of biological a priori knowledge are built into the framework in a modular fashion. A mixture of Dirichlets is used as prior over nucleotide probabilities in binding sites. It is trained...

  13. Restructuring the syllabus for MD Pharmacology: Retrospection of bioassay

    Directory of Open Access Journals (Sweden)

    Sarita Mulkalwar

    2014-01-01

    Full Text Available Introduction: Career prospects in Pharmacology are witnessing a sea change due to fast and unanticipated development in the field of clinical research. Numerous openings exist now in academia, pharmaceutical industry, Clinical Research Organizations (CRO or as regulatory consultants, experimental pharmacologists, etc. In short, there are various options to choose from, depending on one′s interest. It′s high time we ponder now over the training programme for post-graduate students in Pharmacology. It needs to be revised keeping in mind the job prospects & uniqueness of the MD Pharmacology degree. Aim: To take suggestions of experienced pharmacologists on the present syllabus for MD Pharmacology and their opinion on continuation of Bioassay experiment which is currently an important part of it . Materials and Methods: A structured questionnaire was given to 30 experienced pharmacologists to seek their opinion on MD Pharmacology syllabus & continuation of Bioassay as a part of MD practical. Results: Out of 30 participants, 29 (96.6% did not use their knowledge of Bioassay during their 10 years of post MD career, whether in pharmaceutical industry or in academics. Only 5 of them (16.6% feel that experiment on bioassay should be continued in the current state. 76.7% of them wish it to be modified to a Dose Response Curve ( DRC . 6.71% feel that it should be totally scrapped. All the participants feel the need of revising current MD Pharmacology syllabus. Current syllabus is inclined more towards preparing good academicians but it lacks the proper training for creating good clinical research professionals. Medical writing, writing necessary documents for clinical trials including regulatory documents, writing an article for medical journals, marketing communication, product monograph and patient information of a clinical trial could be incorporated. They should be aware of the regulatory requirements for conducting studies on investigational drugs

  14. BI MD Studies on June 29th 2011

    CERN Document Server

    Belohrad, D; Bravin, E; Calvo, E; Dehning, B; Emery, J; Favier, M; Gras, JJ; Guerrero, A; Jeff, A; Lefevre, T; Rabiller, A; Roncarolo, F; Sapinski, M; Soby, L; Steinhagen, R

    2011-01-01

    This note contains the preliminary results of the LHC MD that took place on 29-June-2011 (from 10 p.m. to 07 a.m.), dedicated to study Beam Current Monitors (BCT), Wire Scaners (WS), Synchrotron Radiation (BSRT), Beam Position (BPM), Wall Current (WCM) and Beam Gas Ionization (BGI) monitors. The MD aimed at performing different studies on the individual monitors. At the same time, it was possible to perform calibration studies with the Abort Gap (AGM) and Longitudinal Density (LDM) monitors that share the extracted light with the BSRT. Additionally some observations about the beam stability and emittance dependence on the chromaticity were performed.

  15. Comparative Analysis of Instruments Measuring Time Varying Harmonics

    Science.gov (United States)

    Belchior, Fernando Nunes; Ribeiro, Paulo Fernando; Carvalho, Frederico Marques

    2016-08-01

    This paper aims to evaluate the performance of commercial class A and class S power quality (PQ) instruments when measuring time-varying harmonics. By using a high precision programmable voltage and current source, two meters from different manufacturers are analyzed and compared. Three-phase voltage signals are applied to PQ instruments, considering 3 situations of time-varying harmonic distortions, whose harmonic distortion values are in accordance with typical values found in power systems. This work is relevant considering that international standardization documents do not pay much attention to this aspect of harmonic distortion.

  16. Stock Market Liquidity: Comparative Analysis of Croatian and Regional Markets

    Directory of Open Access Journals (Sweden)

    Vladimir Benić

    2008-12-01

    Full Text Available On the Croatian stock market liquidity has never been in the focus of academic research thus we find it necessary to observe liquidity at the aggregate level. This paper observes multi-dimensional liquidity through the impact of turnover on price change together with several one-dimensional measures. In our empirical research we applythe illiquidity measureto seven different stock markets. We focus on the Croatian stock market as compared to other markets in the Central and Eastern Europe and German market. The results of the research indicate a substantial level of illiquidity in the Croatian and other developing markets.

  17. Comparative Analysis on Pesticide Management System between America and China

    Institute of Scientific and Technical Information of China (English)

    Cunzheng; ZHANG; Yong; GONG; Weili; SHAN; Xianjin; LIU

    2013-01-01

    The production and usage amount of pesticides in US rank the leading position in the world. On the basis of protecting the environment and human health, US government has enacted a series of laws and regulations to normalize and manage the production and use of pesticides so as to ensure the development of modern agriculture. In this paper, US pesticide management system is briefly reviewed and compared with the pesticide management system of China, which may provide good reference for china in establishing its own management system and make steps towards the international standard.

  18. Quantitative analysis of cadmium selenide nanocrystal concentration by comparative techniques.

    Science.gov (United States)

    Kuçur, Erol; Boldt, Frank M; Cavaliere-Jaricot, Sara; Ziegler, Jan; Nann, Thomas

    2007-12-01

    In this paper, we compared atomic absorption spectroscopy (AAS), anodic stripping voltammetry (ASV), and UV-vis spectroscopy for the determination of the concentration of CdSe nanocrystal (NC) solutions. The experimental results were combined with crystallographic calculations of the NC size, which led to a very accurate determination of the nanocrystal concentration--a crucial parameter for bioanalytical applications. Furthermore, such a combined approach can be extended to the determination of shell thickness of core/shell materials (e.g., CdSe/ZnS).

  19. COMPARATIVE ANALYSIS OF EXERGETIC BALANCE METHODS IN ALCOHOLIC DISTILLATION COLUMNS

    Directory of Open Access Journals (Sweden)

    Arletis Cruz Llerena

    2017-04-01

    Full Text Available The comparison between three methods to calculate the exergy of the currents involved in the exergetic balance of alcoholic distillation columns is presented. Exergy of the currents was considered as: 1 flow exergies, 2 heat exergies and 3 the sum of flow exergy and chemical exergy. The implementation of the exergetic analysis was examined as a key point to improve the efficiency of the process. A case study, where the methods are applied for the evaluation of the exergy is analyzed; differences among the methods were obtained between the 15% and 30 %. The influence of the studied columns in total work capacity loss was determined, concluding that regardless of the method, the distillation column has shown the higher loss. An economic analysis was made applying the first method to the case study, where the percentage of ethanol in wine increases from 5.8 ºGL to 9 ºGL, which led to a decrease of vapor consumption of 23.66%, an exergetic yield increase of 28.02 % and a combustion gas flow reduction of 24 627 034.4 m3/year.

  20. Comparative molecular analysis of bacterial species associated with periodontal disease.

    Science.gov (United States)

    De Iuliis, V; Ursi, S; Di Tommaso, L M; Caruso, M; Marino, A; D Ercole, S; Caputi, S; Sinjari, B; Festa, F; Macri, M; Martinotti, S; Vitullo, G; Toniato, E

    2016-01-01

    Periodontal disease is an inflammatory disorder affecting the supporting teeth structures, including gingiva, periodontal ligament and alveolar bone, causing loss of connective tissue, reabsorption of alveolar bone and formation of periodontal pockets. The aim of this study is to find a correlation between bacterial growth and periodontal disease. Fifty-seven patients aged between 21 and 65 years, median age 46 years, were enrolled. According to gingival pocket depth, ranging from 3 to 7 mm, patients were divided into two groups: the first (30 patients, 53%) with deep pockets ³ 5 mm and the second (27 patients, 47%) less than 5 mm. The samples taken were processed for microbiological analysis by absolute quantitative real-time Taq-Man technique. Patients affected by periodontal disease were 32 (56%) and patients with gingival bleeding were 35 (61%). This data showed that the presence, the type and the bacterial load in gingival pockets were strongly correlated with gingival depth, periodontal disease and gingival bleeding. Quantitative microbiological analysis is a key point to improve patient compliance, allowing to choose the specific antibiotic treatment. avoiding antibiotic resistance and ensuring the successful outcome of therapy for periodontal disease.

  1. Comparative analysis of affinity-based 5-hydroxymethylation enrichment techniques

    Science.gov (United States)

    Thomson, John P.; Hunter, Jennifer M.; Nestor, Colm E.; Dunican, Donncha S.; Terranova, Rémi; Moggs, Jonathan G.; Meehan, Richard R.

    2013-01-01

    The epigenetic modification of 5-hydroxymethylcytosine (5hmC) is receiving great attention due to its potential role in DNA methylation reprogramming and as a cell state identifier. Given this interest, it is important to identify reliable and cost-effective methods for the enrichment of 5hmC marked DNA for downstream analysis. We tested three commonly used affinity-based enrichment techniques; (i) antibody, (ii) chemical capture and (iii) protein affinity enrichment and assessed their ability to accurately and reproducibly report 5hmC profiles in mouse tissues containing high (brain) and lower (liver) levels of 5hmC. The protein-affinity technique is a poor reporter of 5hmC profiles, delivering 5hmC patterns that are incompatible with other methods. Both antibody and chemical capture-based techniques generate highly similar genome-wide patterns for 5hmC, which are independently validated by standard quantitative PCR (qPCR) and glucosyl-sensitive restriction enzyme digestion (gRES-qPCR). Both antibody and chemical capture generated profiles reproducibly link to unique chromatin modification profiles associated with 5hmC. However, there appears to be a slight bias of the antibody to bind to regions of DNA rich in simple repeats. Ultimately, the increased specificity observed with chemical capture-based approaches makes this an attractive method for the analysis of locus-specific or genome-wide patterns of 5hmC. PMID:24214958

  2. Comparative analysis of muscle architecture in primate arm and forearm.

    Science.gov (United States)

    Kikuchi, Yasuhiro

    2010-04-01

    A comparative study of myological morphology, i.e. muscle mass (MM), muscle fascicle length and muscle physiological cross-sectional area (an indicator of the force capacity of muscles), was conducted in nine primate species: human (Homo sapiens), chimpanzee (Pan troglodytes), gibbon (Hylobates spp.), papio (Papio hamadryas), lutong (Trachypithecus francoisi), green monkey (Chlorocebus aethiops), macaque monkey (Macaca spp.), capuchin monkey (Cebus albifrons) and squirrel monkey (Saimiri sciureus). The MM distributions and the percentages in terms of functional categories were calculated as the ratios of the muscle masses. Moreover, individual normalized data were compared directly amongst species, independent of size differences. The results show that the different ratios of forearm-rotation muscles between chimpanzee and gibbons may be related to the differences in their main positional behaviour, i.e. knuckle-walking in chimpanzees and brachiation in gibbons, and the different frequencies of arm-raising locomotion between these two species. Moreover, monkeys have larger normalized MM values for the elbow extensor muscles than apes, which may be attributed to the fact that almost all monkeys engage in quadrupedal locomotion. The characteristics of the muscle internal parameters of ape and human are discussed in comparison with those of monkey.

  3. Comparative Analysis of Automatic Vehicle Classification Techniques: A Survey

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    Kanwal Yousaf

    2012-09-01

    Full Text Available Vehicle classification has emerged as a significant field of study because of its importance in variety of applications like surveillance, security system, traffic congestion avoidance and accidents prevention etc. So far numerous algorithms have been implemented for classifying vehicle. Each algorithm follows different procedures for detecting vehicles from videos. By evaluating some of the commonly used techniques we highlighted most beneficial methodology for classifying vehicles. In this paper we pointed out the working of several video based vehicle classification algorithms and compare these algorithms on the basis of different performance metrics such as classifiers, classification methodology or principles and vehicle detection ratio etc. After comparing these parameters we concluded that Hybrid Dynamic Bayesian Network (HDBN Classification algorithm is far better than the other algorithms due to its nature of estimating the simplest features of vehicles from different videos. HDBN detects vehicles by following important stages of feature extraction, selection and classification. It extracts the rear view information of vehicles rather than other information such as distance between the wheels and height of wheel etc.

  4. A comparative analysis of DNA barcode microarray feature size

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    Smith Andrew M

    2009-10-01

    Full Text Available Abstract Background Microarrays are an invaluable tool in many modern genomic studies. It is generally perceived that decreasing the size of microarray features leads to arrays with higher resolution (due to greater feature density, but this increase in resolution can compromise sensitivity. Results We demonstrate that barcode microarrays with smaller features are equally capable of detecting variation in DNA barcode intensity when compared to larger feature sizes within a specific microarray platform. The barcodes used in this study are the well-characterized set derived from the Yeast KnockOut (YKO collection used for screens of pooled yeast (Saccharomyces cerevisiae deletion mutants. We treated these pools with the glycosylation inhibitor tunicamycin as a test compound. Three generations of barcode microarrays at 30, 8 and 5 μm features sizes independently identified the primary target of tunicamycin to be ALG7. Conclusion We show that the data obtained with 5 μm feature size is of comparable quality to the 30 μm size and propose that further shrinking of features could yield barcode microarrays with equal or greater resolving power and, more importantly, higher density.

  5. Comparative proteomic analysis of whole saliva from chronic periodontitis patients.

    Science.gov (United States)

    Gonçalves, Lorena Da Rós; Soares, Márcia Regina; Nogueira, Fábio C S; Garcia, Carlos; Camisasca, Danielle Resende; Domont, Gilberto; Feitosa, Alfredo C R; Pereira, Denise de Abreu; Zingali, Russolina B; Alves, Gilda

    2010-05-07

    Chronic periodontal disease is a chronic inflammatory process affecting tooth supporting tissues in the presence of pathogenic bacterial biofilm. There is some evidence for changes in the protein composition of whole saliva from chronic periodontitis patients, but there have been no studies using a proteomic approach. Hence, the aim of this study was to compare the protein profiles of unstimulated whole saliva from patients with periodontitis and healthy subjects by two complementary approaches (2D-gel electrophoresis and liquid chromatography). Protein spots of interest were analyzed by MALDI-TOF-TOF, and the data was complemented by an ESI-Q-TOF experiment. The analyses revealed that subjects with periodontal disease have increased amounts of blood proteins (serum albumin and hemoglobin) and immunoglobulin, and they have a lower abundance of cystatin compared to the control group. A higher number of protein spots were observed in the periodontitis group, of which most were identified as alpha-amylase. This higher number of alpha-amylase variants seems to be caused by hydrolysis by cysteine proteases under such inflammatory conditions. This approach gives novel insights into alterations of salivary protein in presence of periodontal inflammation and may contribute to the improvement of periodontal diagnosis.

  6. Comparative Frictional Analysis of Automobile Drum and Disc Brakes

    Directory of Open Access Journals (Sweden)

    H.P. Khairnar

    2016-03-01

    Full Text Available In the present work, a comparative frictional behaviour of drum brakes and disc brakes in automobiles has been investigated. The influential factors; contact force and friction radius were modeled for the estimation of the friction coefficient for drum as well as disc brakes. The effect of contact force and friction radius is studied with varying conditions of parameters; longitudinal force, caliper force and torque on piston side as well as non-piston side. The numerical results obtained have been compared with the similar obtained from virtual Matlab/Simulink models for drum and disc brakes. The results evidenced that friction radius predominantly affects brake pressure and thus the friction coefficient, also the increase in contact force resulted with decrease in friction coefficient both for drum and disc brakes. Further it has been found that disc brakes exhibit gradual decrease of friction coefficient due to the equitable distribution of braking effort while drum brake presents sudden variations in friction coefficient. It can be revealed that frictional behaviour of disc brake is more consistent than drum brake.

  7. Comparative analysis of different methods for image enhancement

    Institute of Scientific and Technical Information of China (English)

    吴笑峰; 胡仕刚; 赵瑾; 李志明; 李劲; 唐志军; 席在芳

    2014-01-01

    Image enhancement technology plays a very important role to improve image quality in image processing. By enhancing some information and restraining other information selectively, it can improve image visual effect. The objective of this work is to implement the image enhancement to gray scale images using different techniques. After the fundamental methods of image enhancement processing are demonstrated, image enhancement algorithms based on space and frequency domains are systematically investigated and compared. The advantage and defect of the above-mentioned algorithms are analyzed. The algorithms of wavelet based image enhancement are also deduced and generalized. Wavelet transform modulus maxima (WTMM) is a method for detecting the fractal dimension of a signal, it is well used for image enhancement. The image techniques are compared by using the mean (μ), standard deviation (s), mean square error (MSE) and PSNR (peak signal to noise ratio). A group of experimental results demonstrate that the image enhancement algorithm based on wavelet transform is effective for image de-noising and enhancement. Wavelet transform modulus maxima method is one of the best methods for image enhancement.

  8. Comparative Analysis of Transcription Start Sites Using Mutual Information

    Institute of Scientific and Technical Information of China (English)

    D.Ashok Reddy; Chanchal K.Mitra

    2006-01-01

    The transcription start site (TSS) region shows greater variability compared with other promoter elements. We are interested to search for its variability by using information content as a measure. We note in this study that the variability is significant in the block of 5 nucleotides (nt) surrounding the TSS region compared with the block of 15 nt. This suggests that the actual region that may be involved is in the range of 5-10 nt in size. For Escherichia coli, we note that the information content from dinucleotide substitution matrices clearly shows a better discrimination, suggesting the presence of some correlations. However, for human this effect is much less, and for mouse it is practically absent. We can conclude that the presence of short-range correlations within the TSS region is species-dependent and is not universal. We further observe that there are other variable regions in the mitochondrial control element apart from TSS. It is also noted that effective comparisons can only be made on blocks, while single nucleotide comparisons do not give us any detectable signals.

  9. Comparative cytogenetic analysis of diploid and hexaploid Chenopodium album Agg

    Directory of Open Access Journals (Sweden)

    Bożena Kolano

    2011-01-01

    Full Text Available Two cytotypes of Chenopodium album, diploid (2n=2x=18 and hexaploid (2n=6x=54, were analysed using flow cytometry and a FISH experiment. The genome size was indicated as 1.795 pg for the diploid and 3.845 pg for the hexaploid plants which suggested genome downsizing in the evolution of hexaploid cytotype. Double FISH with 25S rDNA and 5S rDNA allowed three to five homologue chromosome pairs to be distinguished depending on the cytotype. The Variation in size and number of rDNA sites between the polyploid C. album and its putative diploid ancestor indicated that rDNA loci underwent rearrangements after polyploidization. Flow cytometry measurements of the relative nuclear DNA content in the somatic tissue of C. album revealed extensive endopolyploidization resulting in tissues comprising a mixture of cells with a different DNA content (from 2C to 32C in varying proportions. The pattern of endopolyploidy was characteristic for the developmental stage of the plant and for the individual organ. Polysomaty was not observed in the embryo tissues however endopolyploidization had taken place in most tested organs of seedlings. The endopolyploidy in diploid and hexaploid C. album was compared to find any relationship between the pattern of polysomaty and polyploidy level in this species. This revealed that polyploid plants showed a decline in the number of endocycles as well as in the frequency of endopolyploidy cells compared to diploid plants.

  10. In silico comparative analysis of SSR markers in plants

    Directory of Open Access Journals (Sweden)

    da Maia Luciano C

    2011-01-01

    Full Text Available Abstract Background The adverse environmental conditions impose extreme limitation to growth and plant development, restricting the genetic potential and reflecting on plant yield losses. The progress obtained by classic plant breeding methods aiming at increasing abiotic stress tolerances have not been enough to cope with increasing food demands. New target genes need to be identified to reach this goal, which requires extensive studies of the related biological mechanisms. Comparative analyses in ancestral plant groups can help to elucidate yet unclear biological processes. Results In this study, we surveyed the occurrence patterns of expressed sequence tag-derived microsatellite markers for model plants. A total of 13,133 SSR markers were discovered using the SSRLocator software in non-redundant EST databases made for all eleven species chosen for this study. The dimer motifs are more frequent in lower plant species, such as green algae and mosses, and the trimer motifs are more frequent for the majority of higher plant groups, such as monocots and dicots. With this in silico study we confirm several microsatellite plant survey results made with available bioinformatics tools. Conclusions The comparative studies of EST-SSR markers among all plant lineages is well suited for plant evolution studies as well as for future studies of transferability of molecular markers.

  11. Comparative flow cytometric analysis of immunofunctionalized nanowire and nanoparticle signatures.

    Science.gov (United States)

    Prina-Mello, Adriele; Whelan, Aine M; Atzberger, Ann; McCarthy, Joseph E; Byrne, Fiona; Davies, Gemma-Louise; Coey, J M D; Volkov, Yuri; Gun'ko, Yurii K

    2010-01-01

    Flow cytometry is one of the gold-standard techniques used in clinical medicine for quantitative immunoassaying. The continuous development of its probes, commonly fluorescent nanoparticles, is important. Lately, the introduction of quantitative multiplexed immunoassay has challenged the use of nanoparticles as probes. Functionalized fluorescent silica-based magnetic nanowires are investigated under flow cytometry as a novel probe category. The preparation and full characterization of these multimodal nanowires is reported and compared to those of silica-based magnetic nanoparticles by flow cytometry. Full characterization includes transmission electron microscopy and fluorescence microscopy imaging, flow cytometric assaying, superconducting quantum interference device (SQUID) magnetization, and Mössbauer spectroscopy measurements. This work shows that loaded silica nanowires have intrinsic geometrical advantages when compared to similar spherical particles due to their unique "flow cytometry fingerprint" when utilized as magnetic carriers for immunodetection applications. These advantages account for a 17% yield in detecting the functional binding between THP-1 and ICAM-1, by utilizing a much lower concentration than that required for the nanoparticles.

  12. RysannMD: A biomedical semantic annotator balancing speed and accuracy.

    Science.gov (United States)

    Cuzzola, John; Jovanović, Jelena; Bagheri, Ebrahim

    2017-07-01

    Recently, both researchers and practitioners have explored the possibility of semantically annotating large and continuously evolving collections of biomedical texts such as research papers, medical reports, and physician notes in order to enable their efficient and effective management and use in clinical practice or research laboratories. Such annotations can be automatically generated by biomedical semantic annotators - tools that are specifically designed for detecting and disambiguating biomedical concepts mentioned in text. The biomedical community has already presented several solid automated semantic annotators. However, the existing tools are either strong in their disambiguation capacity, i.e., the ability to identify the correct biomedical concept for a given piece of text among several candidate concepts, or they excel in their processing time, i.e., work very efficiently, but none of the semantic annotation tools reported in the literature has both of these qualities. In this paper, we present RysannMD (Ryerson Semantic Annotator for Medical Domain), a biomedical semantic annotation tool that strikes a balance between processing time and performance while disambiguating biomedical terms. In other words, RysannMD provides reasonable disambiguation performance when choosing the right sense for a biomedical term in a given context, and does that in a reasonable time. To examine how RysannMD stands with respect to the state of the art biomedical semantic annotators, we have conducted a series of experiments using standard benchmarking corpora, including both gold and silver standards, and four modern biomedical semantic annotators, namely cTAKES, MetaMap, NOBLE Coder, and Neji. The annotators were compared with respect to the quality of the produced annotations measured against gold and silver standards using precision, recall, and F1 measure and speed, i.e., processing time. In the experiments, RysannMD achieved the best median F1 measure across the

  13. Comparative analysis of Haemophilus influenzae hifA (pilin) genes.

    Science.gov (United States)

    Clemans, D L; Marrs, C F; Patel, M; Duncan, M; Gilsdorf, J R

    1998-02-01

    Adherence of Haemophilus influenzae to epithelial cells plays a central role in colonization and is the first step in infection with this organism. Pili, which are large polymorphic surface proteins, have been shown to mediate the binding of H. influenzae to cells of the human respiratory tract. Earlier experiments have demonstrated that the major epitopes of H. influenzae pili are highly conformational and immunologically heterogenous; their subunit pilins are, however, immunologically homogenous. To define the extent of structural variation in pilins, which polymerize to form pili, the pilin genes (hifA) of 26 type a to f and 16 nontypeable strains of H. influenzae were amplified by PCR and subjected to restriction fragment length polymorphism (RFLP) analysis with AluI and RsaI. Six different RFLP patterns were identified. Four further RFLP patterns were identified from published hifA sequences from five nontypeable H. influenzae strains. Two patterns contained only nontypeable isolates; one of these contained H. influenzae biotype aegyptius strains F3031 and F3037. Another pattern contained predominantly H. influenzae type f strains. All other patterns were displayed by a variety of capsular and noncapsular types. Sequence analysis of selected hifA genes confirmed the 10 RFLP patterns and showed strong identity among representatives displaying the same RFLP patterns. In addition, the immunologic reactivity of pili with antipilus antisera correlated with the groupings of strains based on hifA RFLP patterns. Those strains that show greater reactivity with antiserum directed against H. influenzae type b strain M43 pili tend to fall into one RFLP pattern (pattern 3); while those strains that show equal or greater reactivity with antiserum directed against H. influenzae type b strain Eagan pili tend to fall in a different RFLP pattern (pattern 1). Sequence analysis of representative HifA pilins from typeable and nontypeable H. influenzae identified several highly

  14. Comparative Analysis of Eubacterial DNA Polymerase Ⅲ Alpha Subunits

    Institute of Scientific and Technical Information of China (English)

    Xiao-Qian Zhao; Jian-Fei Hu; Jun Yu

    2006-01-01

    DNA polymerase Ⅲ is one of the five eubacterial DNA polymerases that is responsible for the replication of DNA duplex. Among the ten subunits of the DNA polymerase Ⅲ core enzyme, the alpha subunit catalyzes the reaction for polymerizing both DNA strands. In this study, we extracted genomic sequences of the alpha subunit from 159 sequenced eubacterial genomes, and carried out sequencebased phylogenetic and structural analyses. We found that all eubacterial genomes have one or more alpha subunits, which form either homodimers or heterodimers.Phylogenetic and domain structural analyses as well as copy number variations of the alpha subunit in each bacterium indicate the classification of alpha subunit into four basic groups: polC, dnaE1, dnaE2, and dnaE3. This classification is of essence in genome composition analysis. We also consolidated the naming convention to avoid further confusion in gene annotations.

  15. Job flexibility in Latin America: A comparative analysis

    Directory of Open Access Journals (Sweden)

    Manuel Alejandro Ibarra Cisneros

    2010-01-01

    Full Text Available Most of studies about labor flexibility show a partial image of the situation of Latin America labor markets. They are limited to confirm, the existence of high degrees of rigidity and the necessity to conduct labor reforms to the margin of specific national circumstances. The design of a synthetic labor rigidity indicator using methodology considered by the oecd, through a factor analysis for countries of IberoAmerica, allows obtaining certain advances in relation to this debate. The results establish the high importance of the rigidity in the procedures of collective dismissal, over normative aspects related to fixed term contracts. Finally, it is establish the little relation between flexibility levels and results in terms of economic development, putting into question the assertions that try to extrapolate strategies of flexibilization like isolated measurement to facilitate the economic progress of a country.

  16. Comparative bacterial proteomics: analysis of the core genome concept.

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    Stephen J Callister

    Full Text Available While comparative bacterial genomic studies commonly predict a set of genes indicative of common ancestry, experimental validation of the existence of this core genome requires extensive measurement and is typically not undertaken. Enabled by an extensive proteome database developed over six years, we have experimentally verified the expression of proteins predicted from genomic ortholog comparisons among 17 environmental and pathogenic bacteria. More exclusive relationships were observed among the expressed protein content of phenotypically related bacteria, which is indicative of the specific lifestyles associated with these organisms. Although genomic studies can establish relative orthologous relationships among a set of bacteria and propose a set of ancestral genes, our proteomics study establishes expressed lifestyle differences among conserved genes and proposes a set of expressed ancestral traits.

  17. Comparative Bacterial Proteomics: Analysis of the Core Genome Concept

    Energy Technology Data Exchange (ETDEWEB)

    Callister, Stephen J.; McCue, Lee Ann; Turse, Josh E.; Monroe, Matthew E.; Auberry, Kenneth J.; Smith, Richard D.; Adkins, Joshua N.; Lipton, Mary S.

    2008-02-06

    Comparative bacterial genomic studies commonly predict a set of genes indicative of common ancestry. Experimental validation of the existence of this core genome requires extensive measurement and is not typically undertaken. Enabled by an extensive proteome database development over a six year period, we experimentally verified the expression of proteins predicted from genomic ortholog comparisons among 17 environmental and pathogenic bacteria. More exclusive relationships were observed among the expressed protein content of phenotypically related bacteria, which is indicative of the specific lifestyles associated with these organisms. While genomic studies establish relative orthologous relationships among a set of bacteria and propose a set of ancestral genes, our proteomics study establishes expressed lifestyle differences among conserved genes and proposes a set of expressed ancestral traits.

  18. COMPARATIVE ANALYSIS OF THE UNEMPLOYMENT BETWEEN ROMANIA AND MOLDOVA

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    CLAUDIA ISAC

    2012-12-01

    Full Text Available Recently, the social security literature noted a major change towards the legal aspects in this field, lowering the importance of the expense and tax issues pursued by economists in their activities. Without minimizing the consistent and continuous importance of the legal foundations of the social security policy implementation, it is necessary that not only the media and the governmental authority websites to disclose information in the social insurance field, but the role of specialists, researchers and academics in finance, tax and even accounting have the role to interpret and give relevant solutions to these issues. Therefore, in this paper, we present in detail the comparative aspects of how the social security segment is organized, mainly the unemployment insurance in both Romania and Moldova by highlighting the financial differences and similarities of these systems.

  19. Comparative analysis of methods of preinvasive melanoma diagnostics

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    Kozlov S.V.

    2013-03-01

    Full Text Available The article discusses one of the problems of oncology — skin melanoma. The research objective is to study and to compare diagnostic methods of preinvasive melanoma including fluorescence diagnosis, dermatoscopy and microwave radiometry. Materials and Methods: The survey has used dermatoscope of Heine Delta 20 Company, the unit RTM-01-RES and the instrument of fluorescent diagnostics «Spectrum-Cluster.» The results suggest the possibility of early detection of melanoma with the use of dermatoscopy. The method may be applied to radiometry screening study. Fluorescence diagnostics is effective for the differential diagnosis of melanoma and melanocytic nevi. In conclusion it has been proved the need for an integrated approach to the diagnostics of melanoma of skin, depending on the different clinical situations.

  20. MTA versus Biodentine: Review of Literature with a Comparative Analysis

    Science.gov (United States)

    Singh, Harpreet; Dhillon, Jaidev Singh; Batra, Munish; Saini, Meenu

    2017-01-01

    An ideal dental repair material should possess certain exclusive properties such as adequate adhesive ability, insolubility, dimensional stability, biocompatibility, bioactivity etc. New materials claiming better performance are continuously being introduced in the market to optimize the care of dental patients. Biodentine has been recently introduced as the “the first all-in-one, bioactive and biocompatible material for damaged dentin replacement”. Manufacturers claim that Biodentine has noticeably shorter setting time in contrast to other silicate cements such as Mineral Trioxide Aggregate (MTA) and also has better mechanical and handling properties. This article is aimed to compare the properties of MTA and Biodentine analyzing the research work done in this field so far by various researchers all across the globe. PMID:28969295