August 2010

Synthetic dendrites of cortical pyramidal cells are indistinguishable from their real counterparts when constructed on the basis of the assumption that their morphology minimizes conduction times within the cell and the total amount of cytoplasm (see Cuntz et al., 10.1371/journal.pcbi.1000877).

Image Credit: Hermann Cuntz

Education

An Introduction to Biomolecular Graphics

Cameron Mura, Colin M. McCrimmon, Jason Vertrees, Michael R. Sawaya

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000918

Research Articles

Frequency-Dependent Selection Predicts Patterns of Radiations and Biodiversity

Carlos J. Melián, David Alonso, Diego P. Vázquez, James Regetz, Stefano Allesina

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000892

Linking Changes in Epithelial Morphogenesis to Cancer Mutations Using Computational Modeling

Katarzyna A. Rejniak, Shizhen E. Wang, Nicole S. Bryce, Hang Chang, Bahram Parvin, Jerome Jourquin, Lourdes Estrada, Joe W. Gray, Carlos L. Arteaga, Alissa M. Weaver, Vito Quaranta, Alexander R. A. Anderson

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000900

Similar Impact of CD8+ T Cell Responses on Early Virus Dynamics during SIV Infections of Rhesus Macaques and Sooty Mangabeys

Roger D. Kouyos, Shari N. Gordon, Silvija I. Staprans, Guido Silvestri, Roland R. Regoes

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000901

Reverse Engineering of Oxygen Transport in the Lung: Adaptation to Changing Demands and Resources through Space-Filling Networks

Chen Hou, Stefan Gheorghiu, Virginia H. Huxley, Peter Pfeifer

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000902

Modeling and Dynamics of the Inward-Facing State of a Na⁺/Cl⁻ Dependent Neurotransmitter Transporter Homologue

Saher Afshan Shaikh, Emad Tajkhorshid

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000905

Evolution under Fluctuating Environments Explains Observed Robustness in Metabolic Networks

Orkun S. Soyer, Thomas Pfeiffer

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000907

Computational Prediction and Experimental Verification of New MAP Kinase Docking Sites and Substrates Including Gli Transcription Factors

Thomas C. Whisenant, David T. Ho, Ryan W. Benz, Jeffrey S. Rogers, Robyn M. Kaake, Elizabeth A. Gordon, Lan Huang, Pierre Baldi, Lee Bardwell

PLOS Computational Biology: published August 26, 2010 | https://doi.org/10.1371/journal.pcbi.1000908

Quantitative Test of the Barrier Nucleosome Model for Statistical Positioning of Nucleosomes Up- and Downstream of Transcription Start Sites

Wolfram Möbius, Ulrich Gerland

PLOS Computational Biology: published August 19, 2010 | https://doi.org/10.1371/journal.pcbi.1000891

Reduction in Learning Rates Associated with Anterograde Interference Results from Interactions between Different Timescales in Motor Adaptation

Gary C. Sing, Maurice A. Smith

PLOS Computational Biology: published August 19, 2010 | https://doi.org/10.1371/journal.pcbi.1000893

Dendritic Spikes Amplify the Synaptic Signal to Enhance Detection of Motion in a Simulation of the Direction-Selective Ganglion Cell

Michael J. Schachter, Nicholas Oesch, Robert G. Smith, W. Rowland Taylor

PLOS Computational Biology: published August 19, 2010 | https://doi.org/10.1371/journal.pcbi.1000899

A Model for a Correlated Random Walk Based on the Ordered Extension of Pseudopodia

Peter J. M. Van Haastert

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000874

Computational Analysis of Phosphopeptide Binding to the Polo-Box Domain of the Mitotic Kinase PLK1 Using Molecular Dynamics Simulation

David J. Huggins, Grahame J. McKenzie, Daniel D. Robinson, Ana J. Narváez, Bryn Hardwick, Meredith Roberts-Thomson, Ashok R. Venkitaraman, Guy H. Grant, Mike C. Payne

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000880

VASP: A Volumetric Analysis of Surface Properties Yields Insights into Protein-Ligand Binding Specificity

Brian Y. Chen, Barry Honig

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000881

Correlation of Influenza Virus Excess Mortality with Antigenic Variation: Application to Rapid Estimation of Influenza Mortality Burden

Aiping Wu, Yousong Peng, Xiangjun Du, Yuelong Shu, Taijiao Jiang

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000882

Computational Models of HIV-1 Resistance to Gene Therapy Elucidate Therapy Design Principles

Sharon Aviran, Priya S. Shah, David V. Schaffer, Adam P. Arkin

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000883

Induced Effects of Sodium Ions on Dopaminergic G-Protein Coupled Receptors

Jana Selent, Ferran Sanz, Manuel Pastor, Gianni De Fabritiis

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000884

Stochastic Ion Channel Gating in Dendritic Neurons: Morphology Dependence and Probabilistic Synaptic Activation of Dendritic Spikes

Robert C. Cannon, Cian O'Donnell, Matthew F. Nolan

PLOS Computational Biology: published August 12, 2010 | https://doi.org/10.1371/journal.pcbi.1000886

Cover

Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.

Education

Research Articles