Ten Simple Rules for Lifelong Learning, According to Hamming

Thomas C. Erren, Tracy E. Slanger, J. Valérie Groß, Philip E. Bourne, Paul Cullen

PLOS Computational Biology: published February 26, 2015 | https://doi.org/10.1371/journal.pcbi.1004020

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How to Write a Presubmission Inquiry

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PLOS Computational Biology: published February 26, 2015 | https://doi.org/10.1371/journal.pcbi.1004098

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Ethical Challenges of Big Data in Public Health

Effy Vayena, Marcel Salathé, Lawrence C. Madoff, John S. Brownstein

PLOS Computational Biology: published February 9, 2015 | https://doi.org/10.1371/journal.pcbi.1003904

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PLOS Computational Biology: published February 9, 2015 | https://doi.org/10.1371/journal.pcbi.1004073

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A Quick Guide for Building a Successful Bioinformatics Community

Aidan Budd, Manuel Corpas, Michelle D. Brazas, Jonathan C. Fuller, Jeremy Goecks, Nicola J. Mulder, Magali Michaut, B. F. Francis Ouellette, Aleksandra Pawlik, Niklas Blomberg

PLOS Computational Biology: published February 5, 2015 | https://doi.org/10.1371/journal.pcbi.1003972

Cyclin and DNA Distributed Cell Cycle Model for GS-NS0 Cells

David G. García Münzer, Margaritis Kostoglou, Michael C. Georgiadis, Efstratios N. Pistikopoulos, Athanasios Mantalaris

PLOS Computational Biology: published February 27, 2015 | https://doi.org/10.1371/journal.pcbi.1004062

Protein Sectors: Statistical Coupling Analysis versus Conservation

Tiberiu Teşileanu, Lucy J. Colwell, Stanislas Leibler

PLOS Computational Biology: published February 27, 2015 | https://doi.org/10.1371/journal.pcbi.1004091

An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks

Saheed Imam, Daniel R. Noguera, Timothy J. Donohue

PLOS Computational Biology: published February 27, 2015 | https://doi.org/10.1371/journal.pcbi.1004103

Protein Complexes in Bacteria

J. Harry Caufield, Marco Abreu, Christopher Wimble, Peter Uetz

PLOS Computational Biology: published February 27, 2015 | https://doi.org/10.1371/journal.pcbi.1004107

A Human Platelet Calcium Calculator Trained by Pairwise Agonist Scanning

Mei Yan Lee, Scott L. Diamond

PLOS Computational Biology: published February 27, 2015 | https://doi.org/10.1371/journal.pcbi.1004118

Stochastic Modeling of Mouse Motor Activity under Deep Brain Stimulation: The Extraction of Arousal Information

Daniel M. Keenan, Amy W. Quinkert, Donald W. Pfaff

PLOS Computational Biology: published February 26, 2015 | https://doi.org/10.1371/journal.pcbi.1003883

Multi-timescale Modeling of Activity-Dependent Metabolic Coupling in the Neuron-Glia-Vasculature Ensemble

Renaud Jolivet, Jay S. Coggan, Igor Allaman, Pierre J. Magistretti

PLOS Computational Biology: published February 26, 2015 | https://doi.org/10.1371/journal.pcbi.1004036

Quantifying Two-Dimensional Filamentous and Invasive Growth Spatial Patterns in Yeast Colonies

Benjamin J. Binder, Joanna F. Sundstrom, Jennifer M. Gardner, Vladimir Jiranek, Stephen G. Oliver

PLOS Computational Biology: published February 26, 2015 | https://doi.org/10.1371/journal.pcbi.1004070

The Molecular Clock of Neutral Evolution Can Be Accelerated or Slowed by Asymmetric Spatial Structure

Benjamin Allen, Christine Sample, Yulia Dementieva, Ruben C. Medeiros, Christopher Paoletti, Martin A. Nowak

PLOS Computational Biology: published February 26, 2015 | https://doi.org/10.1371/journal.pcbi.1004108

Correlations and Functional Connections in a Population of Grid Cells

Benjamin Dunn, Maria Mørreaunet, Yasser Roudi

PLOS Computational Biology: published February 25, 2015 | https://doi.org/10.1371/journal.pcbi.1004052

A Theoretical Justification for Single Molecule Peptide Sequencing

Jagannath Swaminathan, Alexander A. Boulgakov, Edward M. Marcotte

PLOS Computational Biology: published February 25, 2015 | https://doi.org/10.1371/journal.pcbi.1004080

Integrative Analysis of Circadian Transcriptome and Metabolic Network Reveals the Role of De Novo Purine Synthesis in Circadian Control of Cell Cycle

Ying Li, Guang Li, Benjamin Görling, Burkhard Luy, Jiulin Du, Jun Yan

PLOS Computational Biology: published February 25, 2015 | https://doi.org/10.1371/journal.pcbi.1004086

Membrane-Mediated Interaction between Strongly Anisotropic Protein Scaffolds

Yonatan Schweitzer, Michael M. Kozlov

PLOS Computational Biology: published February 24, 2015 | https://doi.org/10.1371/journal.pcbi.1004054

Selectivity by Small-Molecule Inhibitors of Protein Interactions Can Be Driven by Protein Surface Fluctuations

David K. Johnson, John Karanicolas

PLOS Computational Biology: published February 23, 2015 | https://doi.org/10.1371/journal.pcbi.1004081

PathVisio 3: An Extendable Pathway Analysis Toolbox

Martina Kutmon, Martijn P. van Iersel, Anwesha Bohler, Thomas Kelder, Nuno Nunes, Alexander R. Pico, Chris T. Evelo

PLOS Computational Biology: published February 23, 2015 | https://doi.org/10.1371/journal.pcbi.1004085

Segment-Specific Adhesion as a Driver of Convergent Extension

Renske M. A. Vroomans, Paulien Hogeweg, Kirsten H. W. J. ten Tusscher

PLOS Computational Biology: published February 23, 2015 | https://doi.org/10.1371/journal.pcbi.1004092

Critical Slowing Down Governs the Transition to Neuron Spiking

Christian Meisel, Andreas Klaus, Christian Kuehn, Dietmar Plenz

PLOS Computational Biology: published February 23, 2015 | https://doi.org/10.1371/journal.pcbi.1004097

Co-evolutionary Dynamics of Collective Action with Signaling for a Quorum

Jorge M. Pacheco, Vítor V. Vasconcelos, Francisco C. Santos, Brian Skyrms

PLOS Computational Biology: published February 23, 2015 | https://doi.org/10.1371/journal.pcbi.1004101

Potential Benefits of Cattle Vaccination as a Supplementary Control for Bovine Tuberculosis

Andrew J. K. Conlan, Ellen Brooks Pollock, Trevelyan J. McKinley, Andrew P. Mitchell, Gareth J. Jones, Martin Vordermeier, James L. N. Wood

PLOS Computational Biology: published February 19, 2015 | https://doi.org/10.1371/journal.pcbi.1004038

Data-Driven Prediction and Design of bZIP Coiled-Coil Interactions

Vladimir Potapov, Jenifer B. Kaplan, Amy E. Keating

PLOS Computational Biology: published February 19, 2015 | https://doi.org/10.1371/journal.pcbi.1004046

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Modulation of Network Excitability by Persistent Activity: How Working Memory Affects the Response to Incoming Stimuli

Elisa M. Tartaglia, Nicolas Brunel, Gianluigi Mongillo

PLOS Computational Biology: published February 19, 2015 | https://doi.org/10.1371/journal.pcbi.1004059

Computer Simulations Suggest a Key Role of Membranous Nanodomains in Biliary Lipid Secretion

Johannes Eckstein, Nikolaus Berndt, Hermann-Georg Holzhütter

PLOS Computational Biology: published February 18, 2015 | https://doi.org/10.1371/journal.pcbi.1004033

A Unified Model of Shoot Tropism in Plants: Photo-, Gravi- and Propio-ception

Renaud Bastien, Stéphane Douady, Bruno Moulia

PLOS Computational Biology: published February 18, 2015 | https://doi.org/10.1371/journal.pcbi.1004037

The Roles of Post-translational Modifications in the Context of Protein Interaction Networks

Guangyou Duan, Dirk Walther

PLOS Computational Biology: published February 18, 2015 | https://doi.org/10.1371/journal.pcbi.1004049

Heterogeneous CD8⁺ T Cell Migration in the Lymph Node in the Absence of Inflammation Revealed by Quantitative Migration Analysis

Edward J. Banigan, Tajie H. Harris, David A. Christian, Christopher A. Hunter, Andrea J. Liu

PLOS Computational Biology: published February 18, 2015 | https://doi.org/10.1371/journal.pcbi.1004058

Statistical Mechanics Provides Novel Insights into Microtubule Stability and Mechanism of Shrinkage

Ishutesh Jain, Mandar M. Inamdar, Ranjith Padinhateeri

PLOS Computational Biology: published February 18, 2015 | https://doi.org/10.1371/journal.pcbi.1004099

Resting-State Temporal Synchronization Networks Emerge from Connectivity Topology and Heterogeneity

Adrián Ponce-Alvarez, Gustavo Deco, Patric Hagmann, Gian Luca Romani, Dante Mantini, Maurizio Corbetta

PLOS Computational Biology: published February 18, 2015 | https://doi.org/10.1371/journal.pcbi.1004100

A Biologically Constrained, Mathematical Model of Cortical Wave Propagation Preceding Seizure Termination

Laura R. González-Ramírez, Omar J. Ahmed, Sydney S. Cash, C. Eugene Wayne, Mark A. Kramer

PLOS Computational Biology: published February 17, 2015 | https://doi.org/10.1371/journal.pcbi.1004065

Integrative Multi-omics Module Network Inference with Lemon-Tree

Eric Bonnet, Laurence Calzone, Tom Michoel

PLOS Computational Biology: published February 13, 2015 | https://doi.org/10.1371/journal.pcbi.1003983

Input-Dependent Frequency Modulation of Cortical Gamma Oscillations Shapes Spatial Synchronization and Enables Phase Coding

Eric Lowet, Mark Roberts, Avgis Hadjipapas, Alina Peter, Jan van der Eerden, Peter De Weerd

PLOS Computational Biology: published February 13, 2015 | https://doi.org/10.1371/journal.pcbi.1004072

DNA Exit Ramps Are Revealed in the Binding Landscapes Obtained from Simulations in Helical Coordinates

Ignacia Echeverria, Garegin A. Papoian

PLOS Computational Biology: published February 12, 2015 | https://doi.org/10.1371/journal.pcbi.1003980

ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

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PLOS Computational Biology: published February 12, 2015 | https://doi.org/10.1371/journal.pcbi.1004041

Mesoscopic Segregation of Excitation and Inhibition in a Brain Network Model

Daniel Malagarriga, Alessandro E. P. Villa, Jordi Garcia-Ojalvo, Antonio J. Pons

PLOS Computational Biology: published February 11, 2015 | https://doi.org/10.1371/journal.pcbi.1004007

Developing a Molecular Roadmap of Drug-Food Interactions

Kasper Jensen, Yueqiong Ni, Gianni Panagiotou, Irene Kouskoumvekaki

PLOS Computational Biology: published February 10, 2015 | https://doi.org/10.1371/journal.pcbi.1004048

Communication over the Network of Binary Switches Regulates the Activation of A_2A Adenosine Receptor

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PLOS Computational Biology: published February 9, 2015 | https://doi.org/10.1371/journal.pcbi.1004044

Embryonic Stem Cell Specific “Master” Replication Origins at the Heart of the Loss of Pluripotency

Hanna Julienne, Benjamin Audit, Alain Arneodo

PLOS Computational Biology: published February 6, 2015 | https://doi.org/10.1371/journal.pcbi.1003969

Cell Cycle Control by a Minimal Cdk Network

Claude Gérard, John J. Tyson, Damien Coudreuse, Béla Novák

PLOS Computational Biology: published February 6, 2015 | https://doi.org/10.1371/journal.pcbi.1004056

HIV Competition Dynamics over Sexual Networks: First Comer Advantage Conserves Founder Effects

Bence Ferdinandy, Enys Mones, Tamás Vicsek, Viktor Müller

PLOS Computational Biology: published February 5, 2015 | https://doi.org/10.1371/journal.pcbi.1004093

Comprehensive Sieve Analysis of Breakthrough HIV-1 Sequences in the RV144 Vaccine Efficacy Trial

Paul T. Edlefsen, Morgane Rolland, Tomer Hertz, Sodsai Tovanabutra, Andrew J. Gartland, Allan C. deCamp, Craig A. Magaret, Hasan Ahmed, Raphael Gottardo, Michal Juraska, Connor McCoy, Brendan B. Larsen, Eric Sanders-Buell, Chris Carrico, Sergey Menis, Meera Bose, RV144 Sequencing Team, Miguel A. Arroyo, Robert J. O’Connell, Sorachai Nitayaphan, Punnee Pitisuttithum, Jaranit Kaewkungwal, Supachai Rerks-Ngarm, Merlin L. Robb, Tatsiana Kirys, Ivelin S. Georgiev, Peter D. Kwong, Konrad Scheffler, Sergei L. Kosakovsky Pond, Jonathan M. Carlson, Nelson L. Michael, William R. Schief, James I. Mullins, Jerome H. Kim, Peter B. Gilbert

PLOS Computational Biology: published February 3, 2015 | https://doi.org/10.1371/journal.pcbi.1003973

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When Less Is More: Non-monotonic Spike Sequence Processing in Neurons

Hinrich Arnoldt, Shuwen Chang, Sven Jahnke, Birk Urmersbach, Holger Taschenberger, Marc Timme

PLOS Computational Biology: published February 3, 2015 | https://doi.org/10.1371/journal.pcbi.1004002

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Exploring Bacterial Organelle Interactomes: A Model of the Protein-Protein Interaction Network in the Pdu Microcompartment

Julien Jorda, Yu Liu, Thomas A. Bobik, Todd O. Yeates

PLOS Computational Biology: published February 3, 2015 | https://doi.org/10.1371/journal.pcbi.1004067