Journal: PLoS Computational Biology

Volume 9, Issue 7

0 -- 0Marco Pautasso. Ten Simple Rules for Writing a Literature Review
0 -- 0Denis Bucher, Yuan-Hao Hsu, Varnavas D. Mouchlis, Edward A. Dennis, James Andrew McCammon. 2 into a Phospholipid Bilayer via Coarse-Grained and Atomistic Molecular Dynamics Simulations
0 -- 0Michael J. Lawson, Brian Drawert, Mustafa Khammash, Linda Petzold, Tau-Mu Yi. Spatial Stochastic Dynamics Enable Robust Cell Polarization
0 -- 0Idan Menashe, Pascal Grange, Eric C. Larsen, Sharmila Banerjee-Basu, Partha P. Mitra. Co-expression Profiling of Autism Genes in the Mouse Brain
0 -- 0Archana Bajpai, Anna Feoktistova, Jun-Song Chen, Dannel McCollum, Masamitsu Sato, Rafael Edgardo Carazo-Salas, Kathleen L. Gould, Attila Csikasz-Nagy. Dynamics of SIN Asymmetry Establishment
0 -- 0Shuzhao Li, Youngja Park, Sai Duraisingham, Frederick H. Strobel, Nooruddin Khan, Quinlyn A. Soltow, Dean P. Jones, Bali Pulendran. Predicting Network Activity from High Throughput Metabolomics
0 -- 0James C. Robertson, Nate C. Hurley, Marcello Tortorici, Giuseppe Ciossani, Maria Teresa Borrello, Nadeem A. Vellore, A. Ganesan, Andrea Mattevi, Riccardo Baron. Expanding the Druggable Space of the LSD1/CoREST Epigenetic Target: New Potential Binding Regions for Drug-Like Molecules, Peptides, Protein Partners, and Chromatin
0 -- 0David P. Reichert, Peggy Seriès, Amos J. Storkey. Charles Bonnet Syndrome: Evidence for a Generative Model in the Cortex?
0 -- 0Pinkesh K. Patel, Orian Shirihai, Kerwyn Casey Huang. Optimal Dynamics for Quality Control in Spatially Distributed Mitochondrial Networks
0 -- 0Joshua T. Schiffer, Dave A. Swan, Daniel Stone, Keith R. Jerome. Predictors of Hepatitis B Cure Using Gene Therapy to Deliver DNA Cleavage Enzymes: A Mathematical Modeling Approach
0 -- 0Changji Shi, Chuan-Hsiang Huang, Peter N. Devreotes, Pablo A. Iglesias. Interaction of Motility, Directional Sensing, and Polarity Modules Recreates the Behaviors of Chemotaxing Cells
0 -- 0Szymon Leski, Henrik Lindén, Tom Tetzlaff, Klas H. Pettersen, Gaute T. Einevoll. Frequency Dependence of Signal Power and Spatial Reach of the Local Field Potential
0 -- 0Umadevi Paila, Brad A. Chapman, Rory Kirchner, Aaron R. Quinlan. GEMINI: Integrative Exploration of Genetic Variation and Genome Annotations
0 -- 0Kai-Cheng Hsu, Wen-Chi Cheng, Yen-Fu Chen, Wen-Ching Wang, Jinn-Moon Yang. Pathway-based Screening Strategy for Multitarget Inhibitors of Diverse Proteins in Metabolic Pathways
0 -- 0Xiujuan Wang, Bram Thijssen, Haiyuan Yu. Target Essentiality and Centrality Characterize Drug Side Effects
0 -- 0Xiangfei Song, Yefei Wang, Zhiyu Shu, Jingbo Hong, Tong Li, Lishan Yao. Bacillus subtilis YtvA LOV Domain by a Computer Aided Rational Design Method
0 -- 0Kathryn Miller-Jensen, Ron Skupsky, Priya S. Shah, Adam P. Arkin, David V. Schaffer. Genetic Selection for Context-Dependent Stochastic Phenotypes: Sp1 and TATA Mutations Increase Phenotypic Noise in HIV-1 Gene Expression
0 -- 0Felipe Gerhard, Tilman Kispersky, Gabrielle J. Gutierrez, Eve Marder, Mark A. Kramer, Uri T. Eden. Successful Reconstruction of a Physiological Circuit with Known Connectivity from Spiking Activity Alone
0 -- 0Iren Bains, Hisse M. van Santen, Benedict Seddon, Andrew J. Yates. Models of Self-Peptide Sampling by Developing T Cells Identify Candidate Mechanisms of Thymic Selection
0 -- 0Andrew Cron, Cécile Gouttefangeas, Jacob Frelinger, Lin Lin, Satwinder K. Singh, Cedrik M. Britten, Marij J. P. Welters, Sjoerd H. van der Burg, Mike West, Cliburn Chan. Hierarchical Modeling for Rare Event Detection and Cell Subset Alignment across Flow Cytometry Samples
0 -- 0Petter Holme. Epidemiologically Optimal Static Networks from Temporal Network Data
0 -- 0Jincheng Wu, Emmanuel S. Tzanakakis. Distinct Allelic Patterns of Nanog Expression Impart Embryonic Stem Cell Population Heterogeneity
0 -- 0Elad Noor, Hulda S. Haraldsdóttir, Ron Milo, Ronan M. T. Fleming. Consistent Estimation of Gibbs Energy Using Component Contributions
0 -- 0Alex Roxin, Stefano Fusi. Efficient Partitioning of Memory Systems and Its Importance for Memory Consolidation
0 -- 0Swagatam Mukhopadhyay, Anirvan M. Sengupta. The Role of Multiple Marks in Epigenetic Silencing and the Emergence of a Stable Bivalent Chromatin State
0 -- 0Robert C. Wilson, Matthew R. Nassar, Joshua I. Gold. A Mixture of Delta-Rules Approximation to Bayesian Inference in Change-Point Problems
0 -- 0Natalia Pietrosemoli, Rita Pancsa, Peter Tompa. Structural Disorder Provides Increased Adaptability for Vesicle Trafficking Pathways
0 -- 0Chao Cheng, Matthew Ung, Gavin D. Grant, Michael L. Whitfield. Transcription Factor Binding Profiles Reveal Cyclic Expression of Human Protein-coding Genes and Non-coding RNAs
0 -- 0James M. McFarland, Yuwei Cui, Daniel A. Butts. Inferring Nonlinear Neuronal Computation Based on Physiologically Plausible Inputs
0 -- 0Nikhil J. Joshi, Giulio Tononi, Christof Koch. The Minimal Complexity of Adapting Agents Increases with Fitness
0 -- 0Justin Ritz, Joshua S. Martin, Alain Laederach. Evolutionary Evidence for Alternative Structure in RNA Sequence Co-variation
0 -- 0Nadine Veith, Anna Feldman-Salit, Vlad Cojocaru, Stefan Henrich, Ursula Kummer, Rebecca C. Wade. Organism-Adapted Specificity of the Allosteric Regulation of Pyruvate Kinase in Lactic Acid Bacteria
0 -- 0Ashutosh Malhotra, Erfan Younesi, Harsha Gurulingappa, Martin Hofmann-Apitius. 'HypothesisFinder: ' A Strategy for the Detection of Speculative Statements in Scientific Text
0 -- 0Burcu Aykaç Fas, Yusuf Tutar, Türkan Haliloglu. Dynamic Fluctuations Provide the Basis of a Conformational Switch Mechanism in Apo Cyclic AMP Receptor Protein
0 -- 0Jonathan M. Dreyfuss, Jeremy D. Zucker, Heather M. Hood, Linda R. Ocasio, Matthew S. Sachs, James E. Galagan. Neurospora crassa Using FARM
0 -- 0Joshua I. Glaser, Bradley M. Zamft, Adam H. Marblestone, Jeffrey R. Moffitt, Keith Tyo, Edward S. Boyden III, George M. Church, Konrad P. Körding. Statistical Analysis of Molecular Signal Recording
0 -- 0Biswa Sengupta, Martin B. Stemmler, Karl J. Friston. Information and Efficiency in the Nervous System - A Synthesis
0 -- 0Hadas Zur, Tamir Tuller. New Universal Rules of Eukaryotic Translation Initiation Fidelity
0 -- 0Iaroslav Ispolatov, Anne Müsch. A Model for the Self-Organization of Vesicular Flux and Protein Distributions in the Golgi Apparatus
0 -- 0Eleanor R. Brush, David C. Krakauer, Jessica C. Flack. A Family of Algorithms for Computing Consensus about Node State from Network Data
0 -- 0Deeptak Verma, Donald J. Jacobs, Dennis R. Livesay. Variations within Class-A β-Lactamase Physiochemical Properties Reflect Evolutionary and Environmental Patterns, but not Antibiotic Specificity
0 -- 0Adrian Schneider, Michael F. Seidl, Berend Snel. Shared Protein Complex Subunits Contribute to Explaining Disrupted Co-occurrence
0 -- 0Drazen Petrov, Christian Margreitter, Melanie Grandits, Chris Oostenbrink, Bojan Zagrovic. A Systematic Framework for Molecular Dynamics Simulations of Protein Post-Translational Modifications
0 -- 0Jaeyun Sung, Pan Jun Kim, Shuyi Ma, Cory C. Funk, Andrew T. Magis, Yuliang Wang, Leroy Hood, Donald Geman, Nathan D. Price. Multi-study Integration of Brain Cancer Transcriptomes Reveals Organ-Level Molecular Signatures
0 -- 0Eduardo Serrano, Thomas Nowotny, Rafael Levi, Brian H. Smith, Ramón Huerta. Gain Control Network Conditions in Early Sensory Coding
0 -- 0Gibin G. Powathil, Douglas J. A. Adamson, Mark A. J. Chaplain. Towards Predicting the Response of a Solid Tumour to Chemotherapy and Radiotherapy Treatments: Clinical Insights from a Computational Model
0 -- 0C. J. Zopf, Katie Quinn, Joshua Zeidman, Narendra Maheshri. Cell-Cycle Dependence of Transcription Dominates Noise in Gene Expression
0 -- 0Katherine Kay, Ian M. Hastings. Improving Pharmacokinetic-Pharmacodynamic Modeling to Investigate Anti-Infective Chemotherapy with Application to the Current Generation of Antimalarial Drugs