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Table of Contents

April 2011

Cover

A model of the morphology of the rat vibrissal array.
Issue Image

The rat vibrissal system provides an ideal model to examine how the physical embodiment of a sensory array shapes the sensing process. We quantified the morphology of the rat vibrissal array to develop a model that can be used to simulate the spatiotemporal patterns of vibrissa—object contact during tactile exploratory behavior (see Towal et al. doi:10.1371/journal.pcbi.1001120). The left half of the image illustrates the vibrissal array of a real rat, and the right half illustrates the model.

Image Credit: Brian Quist, Northwestern University

Perspective

Minimum Information About a Simulation Experiment (MIASE)

Dagmar Waltemath, Richard Adams, Daniel A. Beard, Frank T. Bergmann, Upinder S. Bhalla, Randall Britten, Vijayalakshmi Chelliah, Michael T. Cooling, Jonathan Cooper, Edmund J. Crampin, Alan Garny, Stefan Hoops, Michael Hucka, Peter Hunter, Edda Klipp, Camille Laibe, Andrew K. Miller, Ion Moraru, David Nickerson, Poul Nielsen, Macha Nikolski, Sven Sahle, Herbert M. Sauro, Henning Schmidt, Jacky L. Snoep, Dominic Tolle, Olaf Wolkenhauer, Nicolas Le Novère

PLOS Computational Biology: published April 28, 2011 | https://doi.org/10.1371/journal.pcbi.1001122

Review

A Comparison of Mathematical Models for Polarization of Single Eukaryotic Cells in Response to Guided Cues

Alexandra Jilkine, Leah Edelstein-Keshet

PLOS Computational Biology: published April 28, 2011 | https://doi.org/10.1371/journal.pcbi.1001121

Research Articles

A Stochastic Model of Latently Infected Cell Reactivation and Viral Blip Generation in Treated HIV Patients

Jessica M. Conway, Daniel Coombs

PLOS Computational Biology: published April 28, 2011 | https://doi.org/10.1371/journal.pcbi.1002033

Drug Discovery Using Chemical Systems Biology: Weak Inhibition of Multiple Kinases May Contribute to the Anti-Cancer Effect of Nelfinavir

Li Xie, Thomas Evangelidis, Lei Xie, Philip E. Bourne

PLOS Computational Biology: published April 28, 2011 | https://doi.org/10.1371/journal.pcbi.1002037

Quantifying the Relative Contributions of Divisive and Subtractive Feedback to Rhythm Generation

Joël Tabak, John Rinzel, Richard Bertram

PLOS Computational Biology: published April 21, 2011 | https://doi.org/10.1371/journal.pcbi.1001124

Linking Microscopic Spatial Patterns of Tissue Destruction in Emphysema to Macroscopic Decline in Stiffness Using a 3D Computational Model

Harikrishnan Parameswaran, Arnab Majumdar, Béla Suki

PLOS Computational Biology: published April 21, 2011 | https://doi.org/10.1371/journal.pcbi.1001125

Disentangling the Roles of Approach, Activation and Valence in Instrumental and Pavlovian Responding

Quentin J. M. Huys, Roshan Cools, Martin Gölzer, Eva Friedel, Andreas Heinz, Raymond J. Dolan, Peter Dayan

PLOS Computational Biology: published April 21, 2011 | https://doi.org/10.1371/journal.pcbi.1002028

Related Articles

  1. Correction: Disentangling the Roles of Approach, Activation and Valence in Instrumental and Pavlovian Responding

Accessing a Hidden Conformation of the Maltose Binding Protein Using Accelerated Molecular Dynamics

Denis Bucher, Barry J. Grant, Phineus R. Markwick, J. Andrew McCammon

PLOS Computational Biology: published April 21, 2011 | https://doi.org/10.1371/journal.pcbi.1002034

In Silico Elucidation of the Recognition Dynamics of Ubiquitin

Dong Long, Rafael Brüschweiler

PLOS Computational Biology: published April 21, 2011 | https://doi.org/10.1371/journal.pcbi.1002035

Network Archaeology: Uncovering Ancient Networks from Present-Day Interactions

Saket Navlakha, Carl Kingsford

PLOS Computational Biology: published April 14, 2011 | https://doi.org/10.1371/journal.pcbi.1001119

Discovering Biological Progression Underlying Microarray Samples

Peng Qiu, Andrew J. Gentles, Sylvia K. Plevritis

PLOS Computational Biology: published April 14, 2011 | https://doi.org/10.1371/journal.pcbi.1001123

A Third Measure-Metastable State in the Dynamics of Spontaneous Shape Change in Healthy Human's White Cells

Karen A. Selz

PLOS Computational Biology: published April 7, 2011 | https://doi.org/10.1371/journal.pcbi.1001117

Multi-Scaled Explorations of Binding-Induced Folding of Intrinsically Disordered Protein Inhibitor IA3 to its Target Enzyme

Jin Wang, Yong Wang, Xiakun Chu, Stephen J. Hagen, Wei Han, Erkang Wang

PLOS Computational Biology: published April 7, 2011 | https://doi.org/10.1371/journal.pcbi.1001118

The Morphology of the Rat Vibrissal Array: A Model for Quantifying Spatiotemporal Patterns of Whisker-Object Contact

R. Blythe Towal, Brian W. Quist, Venkatesh Gopal, Joseph H. Solomon, Mitra J. Z. Hartmann

PLOS Computational Biology: published April 7, 2011 | https://doi.org/10.1371/journal.pcbi.1001120

Cell-Sorting at the A/P Boundary in the Drosophila Wing Primordium: A Computational Model to Consolidate Observed Non-Local Effects of Hh Signaling

Sabine Schilling, Maria Willecke, Tinri Aegerter-Wilmsen, Olaf A. Cirpka, Konrad Basler, Christian von Mering

PLOS Computational Biology: published April 7, 2011 | https://doi.org/10.1371/journal.pcbi.1002025

Modification of Gene Duplicability during the Evolution of Protein Interaction Network

Matteo D'Antonio, Francesca D. Ciccarelli

PLOS Computational Biology: published April 7, 2011 | https://doi.org/10.1371/journal.pcbi.1002029

MDCK Cystogenesis Driven by Cell Stabilization within Computational Analogues

Jesse A. Engelberg, Anirban Datta, Keith E. Mostov, C. Anthony Hunt

PLOS Computational Biology: published April 7, 2011 | https://doi.org/10.1371/journal.pcbi.1002030

A Mathematical Framework for Estimating Pathogen Transmission Fitness and Inoculum Size Using Data from a Competitive Mixtures Animal Model

James M. McCaw, Nimalan Arinaminpathy, Aeron C. Hurt, Jodie McVernon, Angela R. McLean

PLOS Computational Biology: published April 28, 2011 | https://doi.org/10.1371/journal.pcbi.1002026