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Table of Contents: September 2012

COVER

Myxococcus xanthus cells exhibiting their complex social behaviors.

Image Credit: Zalman Vaksman and Heidi Kaplan, University of Texas Medical School.
Issue Image

M. xanthus is a predatory bacterium that moves on exclusively solid surfaces and exhibits various collective behaviors throughout its lifecycle. In the presence of prey (here E. coli), M. xanthus cells self-organize into periodic bands of traveling waves, termed ripples (left-hand side). In the areas without prey, M. xanthus cells are under nutrient stress and as a result self-organize into haystack-shaped, spore-filled structures termed fruiting bodies (right-hand side, yellow mounds). See Zhang et al.

Editorials

Ten Simple Rules To Commercialize Scientific Research

Anthony C. Fletcher, Philip E. Bourne

Perspectives

Research Articles

Analysis of Surface Protein Expression Reveals the Growth Pattern of the Gram-Negative Outer Membrane

Tristan S. Ursell, Eliane H. Trepagnier, Kerwyn Casey Huang, Julie A. Theriot

Tissue-Specific Functional Networks for Prioritizing Phenotype and Disease Genes

Yuanfang Guan, Dmitriy Gorenshteyn, Margit Burmeister, Aaron K. Wong, John C. Schimenti, Mary Ann Handel, Carol J. Bult, Matthew A. Hibbs, Olga G. Troyanskaya

Risk-Sensitivity in Bayesian Sensorimotor Integration

Jordi Grau-Moya, Pedro A. Ortega, Daniel A. Braun

Coupling between Catalytic Loop Motions and Enzyme Global Dynamics

Zeynep Kurkcuoglu, Ahmet Bakan, Duygu Kocaman, Ivet Bahar, Pemra Doruker

Confidence-based Somatic Mutation Evaluation and Prioritization

Martin Löwer, Bernhard Y. Renard, Jos de Graaf, Meike Wagner, Claudia Paret, Christoph Kneip, Özlem Türeci, Mustafa Diken, Cedrik Britten, Sebastian Kreiter, Michael Koslowski, John C. Castle, Ugur Sahin

The Mechanistic Basis of Myxococcus xanthus Rippling Behavior and Its Physiological Role during Predation

Haiyang Zhang, Zalman Vaksman, Douglas B. Litwin, Peng Shi, Heidi B. Kaplan, Oleg A. Igoshin

What Evidence Is There for the Homology of Protein-Protein Interactions?

Anna C. F. Lewis, Nick S. Jones, Mason A. Porter, Charlotte M. Deane

Speeded Reaching Movements around Invisible Obstacles

Todd E. Hudson, Uta Wolfe, Laurence T. Maloney

Structural Investigation of MscL Gating Using Experimental Data and Coarse Grained MD Simulations

Evelyne Deplazes, Martti Louhivuori, Dylan Jayatilaka, Siewert J. Marrink, Ben Corry

Substrate-Specific Reorganization of the Conformational Ensemble of CSK Implicates Novel Modes of Kinase Function

Michael A. Jamros, Leandro C. Oliveira, Paul C. Whitford, José N. Onuchic, Joseph A. Adams, Patricia A. Jennings

Multistationary and Oscillatory Modes of Free Radicals Generation by the Mitochondrial Respiratory Chain Revealed by a Bifurcation Analysis

Vitaly A. Selivanov, Marta Cascante, Mark Friedman, Mark F. Schumaker, Massimo Trucco, Tatyana V. Votyakova

The p7 Protein of Hepatitis C Virus Forms Structurally Plastic, Minimalist Ion Channels

Danielle E. Chandler, François Penin, Klaus Schulten, Christophe Chipot

Predicting the Extension of Biomedical Ontologies

Catia Pesquita, Francisco M. Couto

Inferring the Structure of Social Contacts from Demographic Data in the Analysis of Infectious Diseases Spread

Laura Fumanelli, Marco Ajelli, Piero Manfredi, Alessandro Vespignani, Stefano Merler

Deciphering Interactions in Moving Animal Groups

Jacques Gautrais, Francesco Ginelli, Richard Fournier, Stéphane Blanco, Marc Soria, Hugues Chaté, Guy Theraulaz

Stochastic Simulations Suggest that HIV-1 Survives Close to Its Error Threshold

Kushal Tripathi, Rajesh Balagam, Nisheeth K. Vishnoi, Narendra M. Dixit

Human Motor Cortical Activity Is Selectively Phase-Entrained on Underlying Rhythms

Kai J. Miller, Dora Hermes, Christopher J. Honey, Adam O. Hebb, Nick F. Ramsey, Robert T. Knight, Jeffrey G. Ojemann, Eberhard E. Fetz

Dependencies among Editing Sites in Serotonin 2C Receptor mRNA

Liran Carmel, Eugene V. Koonin, Stella Dracheva

Correlated Electrostatic Mutations Provide a Reservoir of Stability in HIV Protease

Omar Haq, Michael Andrec, Alexandre V. Morozov, Ronald M. Levy