| | Education A Quick Guide for Computer-Assisted Instruction in Computational Biology and Bioinformatics Manuel João Costa, Eduardo Galembeck, Guilherme A. Marson, and Bayardo B. Torres PMCID: PMC2324196 Perspective Bioinformatics in China: A Personal Perspective Liping Wei and Jun Yu PMCID: PMC2291564 Review Translational Systems Biology of Inflammation Yoram Vodovotz, Marie Csete, John Bartels, Steven Chang, and Gary An PMCID: PMC2329781 Research Articles Dimensionality and Dynamics in the Behavior of C. elegans Greg J. Stephens, Bethany Johnson-Kerner, William Bialek, and William S. Ryu PMCID: PMC2276863 A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach Peng Wang, John Sidney, Courtney Dow, Bianca Mothé, Alessandro Sette, and Bjoern Peters PMCID: PMC2267221 Biosynthetic Potentials of Metabolites and Their Hierarchical Organization Franziska Matthäus, Carlos Salazar, and Oliver Ebenhöh PMCID: PMC2289774 The Statistical Neuroanatomy of Frontal Networks in the Macaque Bruno B. Averbeck and Moonsang Seo PMCID: PMC2268011 Evaluation of Paired-End Sequencing Strategies for Detection of Genome Rearrangements in Cancer Ali Bashir, Stanislav Volik, Colin Collins, Vineet Bafna, and Benjamin J. Raphael PMCID: PMC2278375 Genome-Wide Prediction of SH2 Domain Targets Using Structural Information and the FoldX Algorithm Ignacio E. Sánchez, Pedro Beltrao, Francois Stricher, Joost Schymkowitz, Jesper Ferkinghoff-Borg, Frederic Rousseau, and Luis Serrano PMCID: PMC2271153 Efficient Olfactory Coding in the Pheromone Receptor Neuron of a Moth Lubomir Kostal, Petr Lansky, and Jean-Pierre Rospars PMCID: PMC2291565 Predicting Co-Complexed Protein Pairs from Heterogeneous Data Jian Qiu and William Stafford Noble PMCID: PMC2275314 The Role of Elastic Stresses on Leaf Venation Morphogenesis Maria F. Laguna, Steffen Bohn, and Eduardo A. Jagla PMCID: PMC2275310 A Generalized Allosteric Mechanism for cis-Regulated Cyclic Nucleotide Binding Domains Alexandr P. Kornev, Susan S. Taylor, and Lynn F. Ten Eyck PMCID: PMC2275311 Investigations of Oligonucleotide Usage Variance Within and Between Prokaryotes Jon Bohlin, Eystein Skjerve, and David W. Ussery PMCID: PMC2289840 The Emergence and Fate of Horizontally Acquired Genes in Escherichia coli Mark W. J. van Passel, Pradeep Reddy Marri, and Howard Ochman PMCID: PMC2275313 Binding-Induced Folding of a Natively Unstructured Transcription Factor Adrian Gustavo Turjanski, J. Silvio Gutkind, Robert B. Best, and Gerhard Hummer PMCID: PMC2289845 Distinct Timing Mechanisms Produce Discrete and Continuous Movements Raoul Huys, Breanna E. Studenka, Nicole L. Rheaume, Howard N. Zelaznik, and Viktor K. Jirsa PMCID: PMC2329590 Synaptic Learning Rules and Sparse Coding in a Model Sensory System Luca A. Finelli, Seth Haney, Maxim Bazhenov, Mark Stopfer, and Terrence J. Sejnowski PMCID: PMC2278376 Functional Maps of Protein Complexes from Quantitative Genetic Interaction Data Sourav Bandyopadhyay, Ryan Kelley, Nevan J. Krogan, and Trey Ideker PMCID: PMC2289880 An AP Endonuclease 1–DNA Polymerase β Complex: Theoretical Prediction of Interacting Surfaces Alexej Abyzov, Alper Uzun, Phyllis R. Strauss, and Valentin A. Ilyin PMCID: PMC2289873 Performance and Scalability of Discriminative Metrics for Comparative Gene Identification in 12 Drosophila Genomes Michael F. Lin, Ameya N. Deoras, Matthew D. Rasmussen, and Manolis Kellis PMCID: PMC2291194 Correction Correction: Uncovering a Macrophage Transcriptional Program by Integrating Evidence from Motif Scanning and Expression Dynamics Stephen A. Ramsey, Sandy L. Klemm, Daniel E. Zak, Kathleen A. Kennedy, Vesteinn Thorsson, Bin Li, Mark Gilchrist, Elizabeth S. Gold, Carrie D. Johnson, Vladimir Litvak, Garnet Navarro, Jared C. Roach, Carrie M. Rosenberger, Alistair G. Rust, Natalya Yudkovsky, Alan Aderem, and Ilya Shmulevich PMCID: PMC2637085 Corrects: Stephen A. Ramsey, et al. Uncovering a Macrophage Transcriptional Program by Integrating Evidence from Motif Scanning and Expression Dynamics. PLoS Comput Biol. 2008 March; 4(3): e1000021. |
