Journal: PLoS Computational Biology

Volume 12, Issue 2

0 -- 0Benedikt Frieg, Boris Görg, Nadine Homeyer, Verena Keitel, Dieter Häussinger, Holger Gohlke. Molecular Mechanisms of Glutamine Synthetase Mutations that Lead to Clinically Relevant Pathologies
0 -- 0Tiziano Dallavilla, Laurence Abrami, Patrick A. Sandoz, Georgios Savoglidis, Vassily Hatzimanikatis, F. Gisou van der Goot. Model-Driven Understanding of Palmitoylation Dynamics: Regulated Acylation of the Endoplasmic Reticulum Chaperone Calnexin
0 -- 0Steven W. Paugh, David R. Coss, Ju Bao, Lucas T. Laudermilk, Christy R. Grace, Antonio M. Ferreira, M. Brett Waddell, Granger Ridout, Deanna Naeve, Michael R. Leuze, Philip F. LoCascio, John C. Panetta, Mark R. Wilkinson, Ching-Hon Pui, Clayton W. Naeve, Edward C. Uberbacher, Erik J. Bonten, William E. Evans. MicroRNAs Form Triplexes with Double Stranded DNA at Sequence-Specific Binding Sites; a Eukaryotic Mechanism via which microRNAs Could Directly Alter Gene Expression
0 -- 0Mathieu Schiess, Robert Urbanczik, Walter Senn. Somato-dendritic Synaptic Plasticity and Error-backpropagation in Active Dendrites
0 -- 0Yong Liu, Min Wu, Chunyan Miao, Peilin Zhao, Xiao-Li Li. Neighborhood Regularized Logistic Matrix Factorization for Drug-Target Interaction Prediction
0 -- 0Benjamin Boucher, Anna Y. Lee, Michael Hallett, Sarah Jenna. Caenorhabditis elegans Genetic Interaction Network within Pathways
0 -- 0Artémis Llamosi, Andres M. Gonzalez-Vargas, Cristian Versari, Eugenio Cinquemani, Giancarlo Ferrari-Trecate, Pascal Hersen, Grégory Batt. What Population Reveals about Individual Cell Identity: Single-Cell Parameter Estimation of Models of Gene Expression in Yeast
0 -- 0Beata Hat, Marek Kochanczyk, Marta N. Bogdal, Tomasz Lipniacki. Feedbacks, Bifurcations, and Cell Fate Decision-Making in the p53 System
0 -- 0Rory M. Donovan, José Juan Tapia, Devin P. Sullivan, James R. Faeder, Robert F. Murphy, Markus Dittrich, Daniel M. Zuckerman. Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories
0 -- 0Harendra Guturu, Sandeep Chinchali, Shoa L. Clarke, Gill Bejerano. Erosion of Conserved Binding Sites in Personal Genomes Points to Medical Histories
0 -- 0Megan A. Greischar, Nicole Mideo, Andrew F. Read, Ottar N. Bjørnstad. Quantifying Transmission Investment in Malaria Parasites
0 -- 0Zohar Z. Bronfman, Noam Brezis, Marius Usher. Non-monotonic Temporal-Weighting Indicates a Dynamically Modulated Evidence-Integration Mechanism
0 -- 0David Angulo-Garcia, Joshua D. Berke, Alessandro Torcini. Cell Assembly Dynamics of Sparsely-Connected Inhibitory Networks: A Simple Model for the Collective Activity of Striatal Projection Neurons
0 -- 0Juntao Liu, Guojun Li, Zheng Chang, Ting Yu, Bingqiang Liu, Rick McMullen, Pengyin Chen, Xiuzhen Huang. De Novo Transcriptome Assembly from RNA-seq Data
0 -- 0Oren Shriki, Dovi Yellin. Optimal Information Representation and Criticality in an Adaptive Sensory Recurrent Neuronal Network
0 -- 0Paul Ardin, Fei Peng, Michael Mangan, Konstantinos Lagogiannis, Barbara Webb. Using an Insect Mushroom Body Circuit to Encode Route Memory in Complex Natural Environments
0 -- 0Joshua M. Inouye, Francisco J. Valero Cuevas. Muscle Synergies Heavily Influence the Neural Control of Arm Endpoint Stiffness and Energy Consumption
0 -- 0James Malone, Robert Stevens, Simon Jupp, Tom Hancocks, Helen E. Parkinson, Catherine Brooksbank. Ten Simple Rules for Selecting a Bio-ontology
0 -- 0Bertrand H. Lemasson, Colby J. Tanner, Eric Dimperio. A Sensory-Driven Trade-Off between Coordinated Motion in Social Prey and a Predator's Visual Confusion
0 -- 0Ting Wang, Zhao Ren, Ying Ding, Zhou Fang, Zhe Sun, Matthew L. MacDonald, Robert A. Sweet, Jieru Wang, Wei Chen. FastGGM: An Efficient Algorithm for the Inference of Gaussian Graphical Model in Biological Networks
0 -- 0Davi R. Ortega, Igor B. Zhulin. Evolutionary Genomics Suggests That CheV Is an Additional Adaptor for Accommodating Specific Chemoreceptors within the Chemotaxis Signaling Complex
0 -- 0Jon Lund Steffensen, Keith Dufault-Thompson, Ying Zhang. PSAMM: A Portable System for the Analysis of Metabolic Models
0 -- 0Yasin Senbabaoglu, Selçuk Onur Sümer, Francisco Sánchez-Vega, Debra Bemis, Giovanni Ciriello, Nikolaus Schultz, Chris Sander. A Multi-Method Approach for Proteomic Network Inference in 11 Human Cancers
0 -- 0Emily P. Harvey, Alona Ben-Tal. Robust Unidirectional Airflow through Avian Lungs: New Insights from a Piecewise Linear Mathematical Model
0 -- 0Travis E. Gibson, Amir Bashan, Hong-Tai Cao, Scott T. Weiss, Yang-Yu Liu. On the Origins and Control of Community Types in the Human Microbiome
0 -- 0William M. Jacobs, Tuomas P. J. Knowles, Daan Frenkel. Oligomers of Heat-Shock Proteins: Structures That Don't Imply Function
0 -- 0. PLOS Computational Biology 2015 Reviewer Thank You
0 -- 0Mathias Foo, David E. Somers, Pan Jun Kim. Arabidopsis Circadian System
0 -- 0Nick Jagiella, Benedikt Müller, Margareta Müller, Irene E. Vignon-Clementel, Dirk Drasdo. Inferring Growth Control Mechanisms in Growing Multi-cellular Spheroids of NSCLC Cells from Spatial-Temporal Image Data
0 -- 0Leonid Chindelevitch, Caroline Colijn, Prashini Moodley, Douglas Wilson, Ted Cohen. Mycobacterium tuberculosis Infections
0 -- 0Javier Macía, Romilde Manzoni, Nuria Conde-Pueyo, Arturo Urrios, Eulàlia de Nadal, Ricard V. Solé, Francesc Posas. Implementation of Complex Biological Logic Circuits Using Spatially Distributed Multicellular Consortia
0 -- 0Joao A. Ascensao, Pratik Datta, Baris Hancioglu, Eduardo Sontag, Maria L. Gennaro, Oleg A. Igoshin. Mycobacterium tuberculosis
0 -- 0Viljami R. Salmela, Linda Henriksson, Simo Vanni. Radial Frequency Analysis of Contour Shapes in the Visual Cortex
0 -- 0Jessica Hedge, Daniel J. Wilson. Practical Approaches for Detecting Selection in Microbial Genomes
0 -- 0Vahid Rahmati, Knut Kirmse, Dimitrije Markovic, Knut Holthoff, Stefan J. Kiebel. Inferring Neuronal Dynamics from Calcium Imaging Data Using Biophysical Models and Bayesian Inference
0 -- 0Ioannis Vlachos, Taskin Deniz, Ad Aertsen, Arvind Kumar. Recovery of Dynamics and Function in Spiking Neural Networks with Closed-Loop Control
0 -- 0Hiromasa Takemura, Cesar F. Caiafa, Brian A. Wandell, Franco Pestilli. Ensemble Tractography
0 -- 0Victor Garcia, Marcus W. Feldman, Roland R. Regoes. + T Cell Escape Mutations in Early HIV Infection
0 -- 0Thomas Miconi, Rufin VanRullen. A Feedback Model of Attention Explains the Diverse Effects of Attention on Neural Firing Rates and Receptive Field Structure
0 -- 0Jingtao Lu, Michael-Rock Goldsmith, Christopher M. Grulke, Daniel T. Chang, Raina D. Brooks, Jeremy A. Leonard, Martin B. Phillips, Ethan D. Hypes, Matthew J. Fair, Rogelio Tornero-Velez, Jeffre Johnson, Curtis C. Dary, Yu-Mei Tan. Developing a Physiologically-Based Pharmacokinetic Model Knowledgebase in Support of Provisional Model Construction
0 -- 0Nicola J. Mulder, Alan Christoffels, Tulio de Oliveira, Junaid Gamieldien, Scott Hazelhurst, Fourie Joubert, Judit Kumuthini, Ché S. Pillay, Jacky L. Snoep, Özlem Tastan Bishop, Nicki Tiffin. The Development of Computational Biology in South Africa: Successes Achieved and Lessons Learnt
0 -- 0Ivana Bozic, Jeffrey M. Gerold, Martin A. Nowak. Quantifying Clonal and Subclonal Passenger Mutations in Cancer Evolution
0 -- 0Nomi L. Harris, Peter J. A. Cock, Hilmar Lapp, Brad Chapman, Rob Davey, Christopher Fields, Karsten Hokamp, Monica C. Munoz-Torres. The 2015 Bioinformatics Open Source Conference (BOSC 2015)
0 -- 0Jordi van Gestel, Martin A. Nowak. Phenotypic Heterogeneity and the Evolution of Bacterial Life Cycles
0 -- 0Niko Beerenwinkel, Chris D. Greenman, Jens Lagergren. Computational Cancer Biology: An Evolutionary Perspective
0 -- 0Daniel Miner, Jochen Triesch. Plasticity-Driven Self-Organization under Topological Constraints Accounts for Non-random Features of Cortical Synaptic Wiring
0 -- 0Andrew Chay, Ilaria Zamparo, Andreas Koschinski, Manuela Zaccolo, Kim T. Blackwell. D-aspartate (NMDA) Receptor-Dependent cAMP Dynamics in Hippocampal Neurons
0 -- 0Swami Iyer, Timothy Killingback. Evolution of Cooperation in Social Dilemmas on Complex Networks
0 -- 0Caroline A. Lea-Carnall, Marcelo A. Montemurro, Nelson J. Trujillo-Barreto, Laura M. Parkes, Wael El-Deredy. Cortical Resonance Frequencies Emerge from Network Size and Connectivity
0 -- 0Skander Mensi, Olivier Hagens, Wulfram Gerstner, Christian Pozzorini. Enhanced Sensitivity to Rapid Input Fluctuations by Nonlinear Threshold Dynamics in Neocortical Pyramidal Neurons
0 -- 0Jan O. Haerter, Namiko Mitarai, Kim Sneppen. Food Web Assembly Rules for Generalized Lotka-Volterra Equations
0 -- 0Benjamin D. Dalziel, Ottar N. Bjørnstad, Willem G. van Panhuis, Donald S. Burke, C. Jessica E. Metcalf, Bryan T. Grenfell. Persistent Chaos of Measles Epidemics in the Prevaccination United States Caused by a Small Change in Seasonal Transmission Patterns
0 -- 0Yohan J. John, Basilis Zikopoulos, Daniel Bullock, Helen Barbas. The Emotional Gatekeeper: A Computational Model of Attentional Selection and Suppression through the Pathway from the Amygdala to the Inhibitory Thalamic Reticular Nucleus
0 -- 0H. Francis Song, Guangyu R. Yang, Xiao-Jing Wang. Training Excitatory-Inhibitory Recurrent Neural Networks for Cognitive Tasks: A Simple and Flexible Framework