Sunday, November 20, 2011

B Fwd: PLoS Computational Biology Volume 7(11) November 2011

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From: "PLoS Computational Biology" <>
Date: Nov 19, 2011 6:27 PM
Subject: PLoS Computational Biology Volume 7(11) November 2011
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PLoS Computational Biology
Volume 7(11) November 2011

View Table of Contents on web site


PLoS Computational Biology Conference Postcards from ISMB/ECCB 2011
Pedro Madrigal, Noa Sela, Simon M. Lin


The What and Where of Adding Channel Noise to the Hodgkin-Huxley Equations
Joshua H. Goldwyn, Eric Shea-Brown

Research Articles

Construction and Analysis of an Integrated Regulatory Network Derived from High-Throughput Sequencing Data
Chao Cheng, Koon-Kiu Yan, Woochang Hwang, Jiang Qian, Nitin Bhardwaj, Joel Rozowsky, Zhi John Lu, Wei Niu, Pedro Alves, Masaomi Kato, Michael Snyder, Mark Gerstein

Robust Signal Processing in Living Cells
Ralf Steuer, Steffen Waldherr, Victor Sourjik, Markus Kollmann

Significance of Input Correlations in Striatal Function
Man Yi Yim, Ad Aertsen, Arvind Kumar

Speed, Sensitivity, and Bistability in Auto-activating Signaling Circuits
Rutger Hermsen, David W. Erickson, Terence Hwa

Virus Replication Strategies and the Critical CTL Numbers Required for the Control of Infection
Andrew J. Yates, Minus Van Baalen, Rustom Antia

Gene Expression Divergence is Coupled to Evolution of DNA Structure in Coding Regions
Zhiming Dai, Xianhua Dai

Optimizing Experimental Design for Comparing Models of Brain Function
Jean Daunizeau, Kerstin Preuschoff, Karl Friston, Klaas Stephan

Sparse Gamma Rhythms Arising through Clustering in Adapting Neuronal Networks
Zachary P. Kilpatrick, Bard Ermentrout

Collective Animal Behavior from Bayesian Estimation and Probability Matching
Alfonso Pérez-Escudero, Gonzalo G. de Polavieja

Genome Majority Vote Improves Gene Predictions
Michael E. Wall, Sindhu Raghavan, Judith D. Cohn, John Dunbar

Replication Pauses of the Wild-Type and Mutant Mitochondrial DNA Polymerase Gamma: A Simulation Study
Zhuo Song, Yang Cao, David C. Samuels

Deciphering the Arginine-Binding Preferences at the Substrate-Binding Groove of Ser/Thr Kinases by Computational Surface Mapping
Avraham Ben-Shimon, Masha Y. Niv

Phosphorylation of the Arp2 Subunit Relieves Auto-inhibitory Interactions for Arp2/3 Complex Activation
Arjun Narayanan, Lawrence L. LeClaire III, Diane L. Barber, Matthew P. Jacobson

Identification of Biochemical Network Modules Based on Shortest Retroactive Distances
Gautham Vivek Sridharan, Soha Hassoun, Kyongbum Lee

Computational Modeling and Analysis of Insulin Induced Eukaryotic Translation Initiation
Joshua Lequieu, Anirikh Chakrabarti, Satyaprakash Nayak, Jeffrey D. Varner

Stochastic Delay Accelerates Signaling in Gene Networks
Krešimir Josić, José Manuel López, William Ott, LieJune Shiau, Matthew R. Bennett

Representational Switching by Dynamical Reorganization of Attractor Structure in a Network Model of the Prefrontal Cortex
Yuichi Katori, Kazuhiro Sakamoto, Naohiro Saito, Jun Tanji, Hajime Mushiake, Kazuyuki Aihara

Dynamical and Structural Analysis of a T Cell Survival Network Identifies Novel Candidate Therapeutic Targets for Large Granular Lymphocyte Leukemia
Assieh Saadatpour, Rui-Sheng Wang, Aijun Liao, Xin Liu, Thomas P. Loughran, István Albert, Réka Albert

A Density-Dependent Switch Drives Stochastic Clustering and Polarization of Signaling Molecules
Alexandra Jilkine, Sigurd B. Angenent, Lani F. Wu, Steven J. Altschuler

Reversible and Noisy Progression towards a Commitment Point Enables Adaptable and Reliable Cellular Decision-Making
Anna Kuchina, Lorena Espinar, Jordi Garcia-Ojalvo, Gürol M. Süel

Neural Dynamics as Sampling: A Model for Stochastic Computation in Recurrent Networks of Spiking Neurons
Lars Buesing, Johannes Bill, Bernhard Nessler, Wolfgang Maass

Transcriptomic Coordination in the Human Metabolic Network Reveals Links between n-3 Fat Intake, Adipose Tissue Gene Expression and Metabolic Health
Melissa J. Morine, Audrey C. Tierney, Ben van Ommen, Hannelore Daniel, Sinead Toomey, Ingrid M. F. Gjelstad, Isobel C. Gormley, Pablo Pérez-Martinez, Christian A. Drevon, Jose López-Miranda, Helen M. Roche

How Landscape Heterogeneity Frames Optimal Diffusivity in Searching Processes
E. P. Raposo, F. Bartumeus, M. G. E. da Luz, P. J. Ribeiro-Neto, T. A. Souza, G. M. Viswanathan

High Degree of Heterogeneity in Alzheimer's Disease Progression Patterns
Natalia L. Komarova, Craig J. Thalhauser

Learning the Optimal Control of Coordinated Eye and Head Movements
Sohrab Saeb, Cornelius Weber, Jochen Triesch

The Statistics of Bulk Segregant Analysis Using Next Generation Sequencing
Paul M. Magwene, John H. Willis, John K. Kelly

Interspecies Translation of Disease Networks Increases Robustness and Predictive Accuracy
Seyed Yahya Anvar, Allan Tucker, Veronica Vinciotti, Andrea Venema, Gert-Jan B. van Ommen, Silvere M. van der Maarel, Vered Raz, Peter A. C. 't Hoen

Stability Properties of Underdominance in Finite Subdivided Populations
Philipp M. Altrock, Arne Traulsen, Floyd A. Reed

Trade-Offs and Constraints in Allosteric Sensing
Bruno M.C. Martins, Peter S. Swain

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