Journal: PLoS Computational Biology

Volume 9, Issue 11

0 -- 0Lennart Martens. About Dice, Bouldering, and Team Empowerment: Running the CompOmics Group at VIB and Ghent University, Belgium
0 -- 0Jeroen de Ridder, Yana Bromberg, Magali Michaut, Venkata P. Satagopam, Manuel Corpas, Geoff Macintyre, Theodore Alexandrov. The Young PI Buzz: Learning from the Organizers of the Junior Principal Investigator Meeting at ISMB-ECCB 2013
0 -- 0Peter Man-Un Ung, Andrea D. Thompson, Lyra Chang, Jason E. Gestwicki, Heather A. Carlson. E. coli Hsp70/DnaK
0 -- 0Theodore Alexandrov, Philip E. Bourne. Learning How to Run a Lab: Interviews with Principal Investigators
0 -- 0Murat Çetinbas, Eugene I. Shakhnovich. Catalysis of Protein Folding by Chaperones Accelerates Evolutionary Dynamics in Adapting Cell Populations
0 -- 0Guido Polles, Giuliana Indelicato, Raffaello Potestio, Paolo Cermelli, Reidun Twarock, Cristian Micheletti. Mechanical and Assembly Units of Viral Capsids Identified via Quasi-Rigid Domain Decomposition
0 -- 0Christophe Micheyl, Paul R. Schrater, Andrew J. Oxenham. Auditory Frequency and Intensity Discrimination Explained Using a Cortical Population Rate Code
0 -- 0Hannah Edwards, Sanne Abeln, Charlotte M. Deane. Exploring Fold Space Preferences of New-born and Ancient Protein Superfamilies
0 -- 0Xiaoxia Wang, Sarada Panchanathan, Gerardo Chowell. A Data-Driven Mathematical Model of CA-MRSA Transmission among Age Groups: Evaluating the Effect of Control Interventions
0 -- 0Stefan Habenschuss, Zeno Jonke, Wolfgang Maass. Stochastic Computations in Cortical Microcircuit Models
0 -- 0Olga Vitek. Leading a Statistical Bioinformatics Lab: It's All About Finding Balance
0 -- 0Davi R. Ortega, Guoya Mo, Kwangwoon Lee, Hongjun Zhou, Jérôme Baudry, Frederick W. Dahlquist, Igor B. Zhulin. Conformational Coupling between Receptor and Kinase Binding Sites through a Conserved Salt Bridge in a Signaling Complex Scaffold Protein
0 -- 0Avinash Kumar Shanmugam, Geoff Macintyre, Magali Michaut, Thomas Abeel. Ten Simple Rules for Starting a Regional Student Group
0 -- 0Janez Konc, Milan Hodoscek, Mitja Ogrizek, Joanna Trykowska Konc, Dusanka Janezic. Structure-Based Function Prediction of Uncharacterized Protein Using Binding Sites Comparison
0 -- 0Jakob J. Metzger, Stephan Eule. Distribution of the Fittest Individuals and the Rate of Muller's Ratchet in a Model with Overlapping Generations
0 -- 0Shayoni Ray, Daniel Yuan, Nimit Dhulekar, Basak Oztan, Bülent Yener, Melinda Larsen. Cell-Based Multi-Parametric Model of Cleft Progression during Submandibular Salivary Gland Branching Morphogenesis
0 -- 0Noa Chapal-Ilani, Yosef E. Maruvka, Adam Spiro, Yitzhak Reizel, Rivka Adar, Liran I. Shlush, Ehud Y. Shapiro. Comparing Algorithms That Reconstruct Cell Lineage Trees Utilizing Information on Microsatellite Mutations
0 -- 0Lucas Theis, Andrè Maia Chagas, Daniel Arnstein, Cornelius Schwarz, Matthias Bethge. Beyond GLMs: A Generative Mixture Modeling Approach to Neural System Identification
0 -- 0Miranda D. Stobbe, Tarun Mishra, Geoff Macintyre. Breaking the Ice and Forging Links: The Importance of Socializing in Research
0 -- 0Rotem Ben-Hamo, Sol Efroni. MicroRNA-Gene Association As a Prognostic Biomarker in Cancer Exposes Disease Mechanisms
0 -- 0Oliwia M. Szklarczyk, Nélido González-Segredo, Philipp Kukura, Ariella Oppenheim, Daniel Choquet, Vahid Sandoghdar, Ari Helenius, Ivo F. Sbalzarini, Helge Ewers. Receptor Concentration and Diffusivity Control Multivalent Binding of Sv40 to Membrane Bilayers
0 -- 0Weronika Sikora-Wohlfeld, Marit Ackermann, Eleni G. Christodoulou, Singaravelu Kalaimathy, Andreas Beyer. Assessing Computational Methods for Transcription Factor Target Gene Identification Based on ChIP-seq Data
0 -- 0Alex Dickson, Charles L. Brooks III. E. coli
0 -- 0Varun B. Kothamachu, Elisenda Feliu, Carsten Wiuf, Luca Cardelli, Orkun S. Soyer. Phosphorelays Provide Tunable Signal Processing Capabilities for the Cell
0 -- 0Simon Mitchell, Pedro Mendes. A Computational Model of Liver Iron Metabolism
0 -- 0Noah Ollikainen, Tanja Kortemme. Computational Protein Design Quantifies Structural Constraints on Amino Acid Covariation
0 -- 0Martin Boerlin, Christian K. Machens, Sophie Denève. Predictive Coding of Dynamical Variables in Balanced Spiking Networks
0 -- 0Kejian Wang, Jiazhi Sun, Shufeng Zhou, Chunling Wan, Shengying Qin, Can Li, Lin He, Lun Yang. Prediction of Drug-Target Interactions for Drug Repositioning Only Based on Genomic Expression Similarity
0 -- 0Takeshi Hase, Samik Ghosh, Ryota Yamanaka, Hiroaki Kitano. Harnessing Diversity towards the Reconstructing of Large Scale Gene Regulatory Networks
0 -- 0Kazunari Mouri, Yasushi Sako. Optimality Conditions for Cell-Fate Heterogeneity That Maximize the Effects of Growth Factors in PC12 Cells
0 -- 0Luca Albergante, Jon Timmis, Lynette Beattie, Paul M. Kaye. Leishmania donovani Infection
0 -- 0Friedemann Zenke, Guillaume Hennequin, Wulfram Gerstner. Synaptic Plasticity in Neural Networks Needs Homeostasis with a Fast Rate Detector
0 -- 0Nickolay A. Khazanov, Heather A. Carlson. Exploring the Composition of Protein-Ligand Binding Sites on a Large Scale
0 -- 0Adam M. Sullivan, Xiaopeng Zhao, Yasuhiro Suzuki, Eri Ochiai, Stephen Crutcher, Michael A. Gilchrist. Toxoplasma gondii Cysts Based on Data-Driven Model Selection
0 -- 0Teresa Ruiz-Herrero, Javier Estrada, Raúl Guantes, David G. Miguez. A Tunable Coarse-Grained Model for Ligand-Receptor Interaction
0 -- 0Timothy Bailey, Pawel Krajewski, Istvan Ladunga, Céline Lefebvre, Qunhua Li, Tao Liu, Pedro Madrigal, Cenny Taslim, Jie Zhang. Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
0 -- 0Natalie Berestovsky, Wanding Zhou, Deepak Nagrath, Luay Nakhleh. Modeling Integrated Cellular Machinery Using Hybrid Petri-Boolean Networks
0 -- 0Biyu J. He, John M. Zempel. Average Is Optimal: An Inverted-U Relationship between Trial-to-Trial Brain Activity and Behavioral Performance
0 -- 0Julian E. Fuchs, Susanne von Grafenstein, Roland G. Huber, Christian Kramer, Klaus R. Liedl. Substrate-Driven Mapping of the Degradome by Comparison of Sequence Logos
0 -- 0Denis Valle, James Clark. Improving the Modeling of Disease Data from the Government Surveillance System: A Case Study on Malaria in the Brazilian Amazon
0 -- 0Damon A. Clark, Raphael Benichou, Markus Meister, Rava Azeredo da Silveira. Dynamical Adaptation in Photoreceptors
0 -- 0Judith A. Blake. Ten Quick Tips for Using the Gene Ontology
0 -- 0Guido Scarabelli, Barry J. Grant. Mapping the Structural and Dynamical Features of Kinesin Motor Domains
0 -- 0Frank S. Heldt, Timo Frensing, Antje Pflugmacher, Robin Gröpler, Britta Peschel, Udo Reichl. Multiscale Modeling of Influenza A Virus Infection Supports the Development of Direct-Acting Antivirals
0 -- 0Antoine Frénoy, François Taddei, Dusan Misevic. Genetic Architecture Promotes the Evolution and Maintenance of Cooperation
0 -- 0Giles W. Story, Ivaylo Vlaev, Ben Seymour, Joel S. Winston, Ara Darzi, Raymond J. Dolan. Dread and the Disvalue of Future Pain
0 -- 0Debabani Ganguly, Weihong Zhang, Jianhan Chen. Electrostatically Accelerated Encounter and Folding for Facile Recognition of Intrinsically Disordered Proteins
0 -- 0Falk Lieder, Klaas E. Stephan, Jean Daunizeau, Marta I. Garrido, Karl J. Friston. A Neurocomputational Model of the Mismatch Negativity
0 -- 0Guillem Portella, Federica Battistini, Modesto Orozco. Understanding the Connection between Epigenetic DNA Methylation and Nucleosome Positioning from Computer Simulations
0 -- 0Erez Persi, David Horn. Systematic Analysis of Compositional Order of Proteins Reveals New Characteristics of Biological Functions and a Universal Correlate of Macroevolution
0 -- 0Ashwini Patil, Yutaro Kumagai, Kuo-ching Liang, Yutaka Suzuki, Kenta Nakai. Linking Transcriptional Changes over Time in Stimulated Dendritic Cells to Identify Gene Networks Activated during the Innate Immune Response
0 -- 0Ridvan Eksi, Hongdong Li, Rajasree Menon, Yuchen Wen, Gilbert S. Omenn, Matthias Kretzler, Yuanfang Guan. Systematically Differentiating Functions for Alternatively Spliced Isoforms through Integrating RNA-seq Data
0 -- 0Harald Kempf, Haralampos Hatzikirou, Marcus Bleicher, Michael Meyer-Hermann. In Silico Analysis of Cell Cycle Synchronisation Effects in Radiotherapy of Tumour Spheroids
0 -- 0Tobias Warnecke, Erin A. Becker, Marc T. Facciotti, Corey Nislow, Ben Lehner. Conserved Substitution Patterns around Nucleosome Footprints in Eukaryotes and Archaea Derive from Frequent Nucleosome Repositioning through Evolution
0 -- 0Peter Godfrey-Smith, Manolo Martínez. Communication and Common Interest