| | Other Issues: previous | next | latest | archiveEducation A Primer on Regression Methods for Decoding cis-Regulatory Logic Debopriya Das, Matteo Pellegrini, and Joe W. Gray PMCID: PMC2607548 Editorial A Review of 2008 for PLoS Computational
Biology Evie Browne, Rosemary Dickin, and Philip E. Bourne PMCID: PMC2613517 Message from ISCB Microblogging the ISMB: A New Approach to Conference Reporting Neil Saunders, Pedro Beltrão, Lars Jensen, Daniel Jurczak, Roland Krause, Michael Kuhn, and Shirley Wu PMCID: PMC2612753 Research Articles Questioning the Ubiquity of Neofunctionalization Todd A. Gibson and Debra S. Goldberg PMCID: PMC2597716 Polyamine Sharing between Tubulin Dimers Favours Microtubule
Nucleation and Elongation via Facilitated Diffusion Alain Mechulam, Konstantin G. Chernov, Elodie Mucher, Loic Hamon, Patrick A. Curmi, and David Pastré PMCID: PMC2599886 Shape, Size, and Robustness: Feasible Regions in the Parameter Space of Biochemical Networks Adel Dayarian, Madalena Chaves, Eduardo D. Sontag, and Anirvan M. Sengupta PMCID: PMC2599888 Predicting Cellular Growth from Gene Expression Signatures Edoardo M. Airoldi, Curtis Huttenhower, David Gresham, Charles Lu, Amy A. Caudy, Maitreya J. Dunham, James R. Broach, David Botstein, and Olga G. Troyanskaya PMCID: PMC2599889 Evolutionary Sequence Modeling for Discovery of Peptide Hormones Kemal Sonmez, Naunihal T. Zaveri, Ilan A. Kerman, Sharon Burke, Charles R. Neal, Xinmin Xie, Stanley J. Watson, and Lawrence Toll PMCID: PMC2603333 State Based Model of Long-Term Potentiation and Synaptic Tagging and
Capture Adam B. Barrett, Guy O. Billings, Richard G. M. Morris, and Mark C. W. van Rossum PMCID: PMC2603667 Deterministic Mechanical Model of T-Killer Cell Polarization
Reproduces the Wandering of Aim between Simultaneously Engaged Targets Mun Ju Kim and Ivan V. Maly PMCID: PMC2603019 An Analysis of Enzyme Kinetics Data for Mitochondrial DNA Strand Termination by Nucleoside Reverse Transcription Inhibitors Katherine V. Wendelsdorf, Zhuo Song, Yang Cao, and David C. Samuels PMCID: PMC2603287 Phylogenetic and Functional Assessment of Orthologs Inference
Projects and Methods Adrian M. Altenhoff and Christophe Dessimoz PMCID: PMC2612752 Developmental Robustness by Obligate Interaction of Class B Floral Homeotic Genes and Proteins Thorsten Lenser, Günter Theißen, and Peter Dittrich PMCID: PMC2612583 Action Potential Initiation in the Hodgkin-Huxley Model Lucy J. Colwell and Michael P. Brenner PMCID: PMC2607014 Partial Order Optimum Likelihood (POOL): Maximum Likelihood Prediction of Protein Active Site Residues Using 3D Structure and Sequence Properties Wenxu Tong, Ying Wei, Leonel F. Murga, Mary Jo Ondrechen, and Ronald J. Williams PMCID: PMC2612599 Joint Evolutionary Trees: A Large-Scale Method To Predict Protein
Interfaces Based on Sequence Sampling Stefan Engelen, Ladislas A. Trojan, Sophie Sacquin-Mora, Richard Lavery, and Alessandra Carbone PMCID: PMC2613531 Computational Modeling of the Hematopoietic Erythroid-Myeloid Switch Reveals Insights into Cooperativity, Priming, and Irreversibility Vijay Chickarmane, Tariq Enver, and Carsten Peterson PMCID: PMC2613533 Coordinated Concentration Changes of Transcripts and Metabolites in Saccharomyces cerevisiae Patrick H. Bradley, Matthew J. Brauer, Joshua D. Rabinowitz, and Olga G. Troyanskaya PMCID: PMC2614473 Efficient Network Reconstruction from Dynamical Cascades Identifies
Small-World Topology of Neuronal Avalanches Sinisa Pajevic and Dietmar Plenz PMCID: PMC2615076 Astrocytic Mechanisms Explaining Neural-Activity-Induced Shrinkage of Extraneuronal Space Ivar Østby, Leiv Øyehaug, Gaute T. Einevoll, Erlend A. Nagelhus, Erik Plahte, Thomas Zeuthen, Catherine M. Lloyd, Ole P. Ottersen, and Stig W. Omholt PMCID: PMC2613522 Model-Based Therapeutic Correction of Hypothalamic-Pituitary-Adrenal Axis Dysfunction Amos Ben-Zvi, Suzanne D. Vernon, and Gordon Broderick PMCID: PMC2613527 A Factor Graph Nested Effects Model To Identify Networks from Genetic Perturbations Charles J. Vaske, Carrie House, Truong Luu, Bryan Frank, Chen-Hsiang Yeang, Norman H. Lee, and Joshua M. Stuart PMCID: PMC2613752 Cohesive versus Flexible Evolution of Functional Modules in Eukaryotes Like Fokkens and Berend Snel PMCID: PMC2615111 Poisson-Nernst-Planck Models of Nonequilibrium Ion Electrodiffusion through a Protegrin Transmembrane Pore Dan S. Bolintineanu, Abdallah Sayyed-Ahmad, H. Ted Davis, and Yiannis N. Kaznessis PMCID: PMC2614469 Prediction of Protein–Protein Interaction Sites in Sequences and 3D Structures by Random Forests Mile Šikić, Sanja Tomić, and Kristian Vlahoviček PMCID: PMC2621338 Precise Regulation of Gene Expression Dynamics Favors Complex Promoter Architectures Dirk Müller and Jörg Stelling PMCID: PMC2615112 |
