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PLOS Computational Biology

2005 - 2025

From Public Library of Science
Bibliographic data for series maintained by ploscompbiol ().

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Volume 2, issue 12, 2006

Cooperation is Fleeting in the World of Transposable Elements pp. 1-8 Downloads
Andreas Wagner
Gene Expression of Caenorhabditis elegans Neurons Carries Information on Their Synaptic Connectivity pp. 1-7 Downloads
Alon Kaufman, Gideon Dror, Isaac Meilijson and Eytan Ruppin
Transcriptional Regulation by Competing Transcription Factor Modules pp. 1-9 Downloads
Rutger Hermsen, Sander Tans and Pieter Rein ten Wolde

Volume 2, issue 11, 2006

Ten Simple Rules for Selecting a Postdoctoral Position pp. 1-2 Downloads
Philip E Bourne and Iddo Friedberg
Robustness and Fragility in Immunosenescence pp. 1-7 Downloads
Sean P Stromberg and Jean Carlson
Optimal Noise Filtering in the Chemotactic Response of Escherichia coli pp. 1-12 Downloads
Burton W Andrews, Tau-Mu Yi and Pablo A Iglesias
Meta-Analysis of Differentiating Mouse Embryonic Stem Cell Gene Expression Kinetics Reveals Early Change of a Small Gene Set pp. 1-12 Downloads
Clive H Glover, Michael Marin, Connie J Eaves, Cheryl D Helgason, James M Piret and Jennifer Bryan
Funneled Landscape Leads to Robustness of Cell Networks: Yeast Cell Cycle pp. 1-10 Downloads
Jin Wang, Bo Huang, Xuefeng Xia and Zhirong Sun
Computational Inference of Neural Information Flow Networks pp. 1-14 Downloads
V Anne Smith, Jing Yu, Tom V Smulders, Alexander J Hartemink and Erich D Jarvis
Humans Can Adopt Optimal Discounting Strategy under Real-Time Constraints pp. 1-8 Downloads
N Schweighofer, K Shishida, C E Han, Y Okamoto, S C Tanaka, S Yamawaki and K Doya

Volume 2, issue 10, 2006

Cooperation Prevails When Individuals Adjust Their Social Ties pp. 1-8 Downloads
Francisco C Santos, Jorge M Pacheco and Tom Lenaerts

Volume 2, issue 9, 2006

Sampling Realistic Protein Conformations Using Local Structural Bias pp. 1-13 Downloads
Thomas Hamelryck, John T Kent and Anders Krogh
Imitating Manual Curation of Text-Mined Facts in Biomedicine pp. 1-14 Downloads
Raul Rodriguez-Esteban, Ivan Iossifov and Andrey Rzhetsky
Ten Simple Rules for Reviewers pp. 1-2 Downloads
Philip E Bourne and Alon Korngreen

Volume 2, issue 8, 2006

Insights into the Coupling of Duplication Events and Macroevolution from an Age Profile of Animal Transmembrane Gene Families pp. 1-7 Downloads
Guohui Ding, Jiuhong Kang, Qi Liu, Tieliu Shi, Gang Pei and Yixue Li
The Ion Channel Inverse Problem: Neuroinformatics Meets Biophysics pp. 1-8 Downloads
Robert C Cannon and Giampaolo D'Alessandro

Volume 2, issue 7, 2006

Identification of Genome-Scale Metabolic Network Models Using Experimentally Measured Flux Profiles pp. 1-11 Downloads
Markus J Herrgård, Stephen S Fong and Bernhard Ø Palsson
Complex Parameter Landscape for a Complex Neuron Model pp. 1-11 Downloads
Pablo Achard and Erik De Schutter
Nonoptimal Component Placement, but Short Processing Paths, due to Long-Distance Projections in Neural Systems pp. 1-11 Downloads
Marcus Kaiser and Claus C Hilgetag
Authors' Reply pp. 1-2 Downloads
Hung D Nguyen, Maki Yoshihama and Naoya Kenmochi
On the Estimation of Intron Evolution pp. 1-1 Downloads
Miklós Csűrös
Wiggle—Predicting Functionally Flexible Regions from Primary Sequence pp. 1-17 Downloads
Jenny Gu, Michael Gribskov and Philip E Bourne

Volume 2, issue 6, 2006

A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules pp. 1-11 Downloads
Bjoern Peters, Huynh-Hoa Bui, Sune Frankild, Morten Nielsen, Claus Lundegaard, Emrah Kostem, Derek Basch, Kasper Lamberth, Mikkel Harndahl, Ward Fleri, Stephen S Wilson, John Sidney, Ole Lund, Soren Buus and Alessandro Sette
How Does Cross-Reactive Stimulation Affect the Longevity of CD8+ T Cell Memory? pp. 1-10 Downloads
Vitaly V Ganusov, Sergei S Pilyugin, Rafi Ahmed and Rustom Antia
Parametric Alignment of Drosophila Genomes pp. 1-9 Downloads
Colin N Dewey, Peter M Huggins, Kevin Woods, Bernd Sturmfels and Lior Pachter
Assessing the Accuracy of Ancestral Protein Reconstruction Methods pp. 1-8 Downloads
Paul D Williams, David D Pollock, Benjamin P Blackburne and Richard A Goldstein

Volume 2, issue 5, 2006

Reverse Engineering the Gap Gene Network of Drosophila melanogaster pp. 1-12 Downloads
Theodore J Perkins, Johannes Jaeger, John Reinitz and Leon Glass
Inferring Loss-of-Heterozygosity from Unpaired Tumors Using High-Density Oligonucleotide SNP Arrays pp. 1-10 Downloads
Rameen Beroukhim, Ming Lin, Yuhyun Park, Ke Hao, Xiaojun Zhao, Levi A Garraway, Edward A Fox, Ephraim P Hochberg, Ingo K Mellinghoff, Matthias D Hofer, Aurelien Descazeaud, Mark A Rubin, Matthew Meyerson, Wing Hung Wong, William R Sellers and Cheng Li
Iterative Reconstruction of Transcriptional Regulatory Networks: An Algorithmic Approach pp. 1-10 Downloads
Christian L Barrett and Bernhard O Palsson
Statistics of Knots, Geometry of Conformations, and Evolution of Proteins pp. 1-8 Downloads
Rhonald C Lua and Alexander Y Grosberg

Volume 2, issue 4, 2006

Practical Strategies for Discovering Regulatory DNA Sequence Motifs pp. 1-10 Downloads
Kenzie D MacIsaac and Ernest Fraenkel
The Signal in the Genomes pp. 1-2 Downloads
David Sankoff
Conformational Changes in Protein Loops and Helices Induced by Post-Translational Phosphorylation pp. 1-13 Downloads
Eli S Groban, Arjun Narayanan and Matthew P Jacobson
Codon Usage Domains over Bacterial Chromosomes pp. 1-13 Downloads
Marc Bailly-Bechet, Antoine Danchin, Mudassar Iqbal, Matteo Marsili and Massimo Vergassola

Volume 2, issue 3, 2006

Circadian Clocks Are Resounding in Peripheral Tissues pp. 1-10 Downloads
Andrey A Ptitsyn, Sanjin Zvonic, Steven A Conrad, L Keith Scott, Randall L Mynatt and Jeffrey M Gimble

Volume 2, issue 2, 2006

Seriation in Paleontological Data Using Markov Chain Monte Carlo Methods pp. 1-9 Downloads
Kai Puolamäki, Mikael Fortelius and Heikki Mannila
Ten Simple Rules for Getting Grants pp. 1-2 Downloads
Philip E Bourne and Leo M Chalupa

Volume 1, issue 7, 2005

New Maximum Likelihood Estimators for Eukaryotic Intron Evolution pp. 1-8 Downloads
Hung D Nguyen, Maki Yoshihama and Naoya Kenmochi
PhyloGibbs: A Gibbs Sampling Motif Finder That Incorporates Phylogeny pp. 1-23 Downloads
Rahul Siddharthan, Eric D Siggia and Erik van Nimwegen

Volume 1, issue 6, 2005

A Guild of 45 CRISPR-Associated (Cas) Protein Families and Multiple CRISPR/Cas Subtypes Exist in Prokaryotic Genomes pp. 1-10 Downloads
Daniel H Haft, Jeremy Selengut, Emmanuel F Mongodin and Karen E Nelson
Use of Artificial Genomes in Assessing Methods for Atypical Gene Detection pp. 1-13 Downloads
Rajeev K Azad and Jeffrey G Lawrence
Bioinformatics Education—Perspectives and Challenges pp. 1-2 Downloads
Shoba Ranganathan
Quantitative Analysis of Genetic and Neuronal Multi-Perturbation Experiments pp. 1-7 Downloads
Alon Kaufman, Alon Keinan, Isaac Meilijson, Martin Kupiec and Eytan Ruppin

Volume 1, issue 5, 2005

Protein Molecular Function Prediction by Bayesian Phylogenomics pp. 1- Downloads
Barbara E Engelhardt, Michael I Jordan, Kathryn E Muratore and Steven E Brenner
Genomic Variability within an Organism Exposes Its Cell Lineage Tree pp. 1-13 Downloads
Dan Frumkin, Adam Wasserstrom, Shai Kaplan, Uriel Feige and Ehud Shapiro
Ten Simple Rules for Getting Published pp. 1-2 Downloads
Philip E Bourne
The ISCB: Growing and Evolving in Step with Science pp. 1-6 Downloads
Michael Gribskov

Volume 1, issue 4, 2005

Inferring Hypotheses on Functional Relationships of Genes: Analysis of the Arabidopsis thaliana Subtilase Gene Family pp. 1- Downloads
Carsten Rautengarten, Dirk Steinhauser, Dirk Büssis, Annick Stintzi, Andreas Schaller, Joachim Kopka and Thomas Altmann

Volume 1, issue 2, 2005

Recognition of Unknown Conserved Alternatively Spliced Exons pp. 1- Downloads
Uwe Ohler, Noam Shomron and Christopher B Burge

Volume 1, issue 1, 2005

Combinatorial Pattern Discovery Approach for the Folding Trajectory Analysis of a β -Hairpin pp. 1- Downloads
Laxmi Parida and Ruhong Zhou
Page updated 2025-07-09