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Content
May 2007, Volume 3, Issue 5
- 1-13 Integrated Mechanisms of Anticipation and Rate-of-Change Computations in Cortical Circuits
by Gabriel D Puccini & Maria V Sanchez-Vives & Albert Compte - 1-13 The Human Genomic Melting Map
by Fang Liu & Eivind Tøstesen & Jostein K Sundet & Tor-Kristian Jenssen & Christoph Bock & Geir Ivar Jerstad & William G Thilly & Eivind Hovig
April 2007, Volume 3, Issue 4
- 1-2 Ten Simple Rules for Making Good Oral Presentations
by Philip E Bourne - 1-7 Deciphering Protein–Protein Interactions. Part II. Computational Methods to Predict Protein and Domain Interaction Partners
by Benjamin A Shoemaker & Anna R Panchenko
March 2007, Volume 3, Issue 3
- 1-9 Measures of Clade Confidence Do Not Correlate with Accuracy of Phylogenetic Trees
by Barry G Hall & Stephen J Salipante - 1-10 Global Discriminative Learning for Higher-Accuracy Computational Gene Prediction
by Axel Bernal & Koby Crammer & Artemis Hatzigeorgiou & Fernando Pereira - 1-10 Structural Descriptors of gp120 V3 Loop for the Prediction of HIV-1 Coreceptor Usage
by Oliver Sander & Tobias Sing & Ingolf Sommer & Andrew J Low & Peter K Cheung & P Richard Harrigan & Thomas Lengauer & Francisco S Domingues - 1-13 Potential Energy Landscape and Robustness of a Gene Regulatory Network: Toggle Switch
by Keun-Young Kim & Jin Wang - 1-14 DNA Familial Binding Profiles Made Easy: Comparison of Various Motif Alignment and Clustering Strategies
by Shaun Mahony & Philip E Auron & Panayiotis V Benos - 1-15 Query-Dependent Banding (QDB) for Faster RNA Similarity Searches
by Eric P Nawrocki & Sean R Eddy
February 2007, Volume 3, Issue 2
- 1-10 Robustness Can Evolve Gradually in Complex Regulatory Gene Networks with Varying Topology
by Stefano Ciliberti & Olivier C Martin & Andreas Wagner - 1-14 Functional Impact of Missense Variants in BRCA1 Predicted by Supervised Learning
by Rachel Karchin & Alvaro N A Monteiro & Sean V Tavtigian & Marcelo A Carvalho & Andrej Sali
January 2007, Volume 3, Issue 1
- 1-2 Moving Education Forward
by Fran Lewitter
December 2006, Volume 2, Issue 12
- 1-7 Gene Expression of Caenorhabditis elegans Neurons Carries Information on Their Synaptic Connectivity
by Alon Kaufman & Gideon Dror & Isaac Meilijson & Eytan Ruppin - 1-8 Cooperation is Fleeting in the World of Transposable Elements
by Andreas Wagner - 1-9 Transcriptional Regulation by Competing Transcription Factor Modules
by Rutger Hermsen & Sander Tans & Pieter Rein ten Wolde
November 2006, Volume 2, Issue 11
- 1-2 Ten Simple Rules for Selecting a Postdoctoral Position
by Philip E Bourne & Iddo Friedberg - 1-7 Robustness and Fragility in Immunosenescence
by Sean P Stromberg & Jean Carlson - 1-8 Humans Can Adopt Optimal Discounting Strategy under Real-Time Constraints
by N Schweighofer & K Shishida & C E Han & Y Okamoto & S C Tanaka & S Yamawaki & K Doya - 1-10 Funneled Landscape Leads to Robustness of Cell Networks: Yeast Cell Cycle
by Jin Wang & Bo Huang & Xuefeng Xia & Zhirong Sun - 1-12 Optimal Noise Filtering in the Chemotactic Response of Escherichia coli
by Burton W Andrews & Tau-Mu Yi & Pablo A Iglesias - 1-12 Meta-Analysis of Differentiating Mouse Embryonic Stem Cell Gene Expression Kinetics Reveals Early Change of a Small Gene Set
by Clive H Glover & Michael Marin & Connie J Eaves & Cheryl D Helgason & James M Piret & Jennifer Bryan - 1-14 Computational Inference of Neural Information Flow Networks
by V Anne Smith & Jing Yu & Tom V Smulders & Alexander J Hartemink & Erich D Jarvis
October 2006, Volume 2, Issue 10
- 1-8 Cooperation Prevails When Individuals Adjust Their Social Ties
by Francisco C Santos & Jorge M Pacheco & Tom Lenaerts
September 2006, Volume 2, Issue 9
- 1-2 Ten Simple Rules for Reviewers
by Philip E Bourne & Alon Korngreen - 1-13 Sampling Realistic Protein Conformations Using Local Structural Bias
by Thomas Hamelryck & John T Kent & Anders Krogh - 1-14 Imitating Manual Curation of Text-Mined Facts in Biomedicine
by Raul Rodriguez-Esteban & Ivan Iossifov & Andrey Rzhetsky
August 2006, Volume 2, Issue 8
- 1-7 Insights into the Coupling of Duplication Events and Macroevolution from an Age Profile of Animal Transmembrane Gene Families
by Guohui Ding & Jiuhong Kang & Qi Liu & Tieliu Shi & Gang Pei & Yixue Li - 1-8 The Ion Channel Inverse Problem: Neuroinformatics Meets Biophysics
by Robert C Cannon & Giampaolo D'Alessandro
July 2006, Volume 2, Issue 7
- 1-1 On the Estimation of Intron Evolution
by Miklós Csűrös - 1-2 Authors' Reply
by Hung D Nguyen & Maki Yoshihama & Naoya Kenmochi - 1-11 Nonoptimal Component Placement, but Short Processing Paths, due to Long-Distance Projections in Neural Systems
by Marcus Kaiser & Claus C Hilgetag - 1-11 Identification of Genome-Scale Metabolic Network Models Using Experimentally Measured Flux Profiles
by Markus J Herrgård & Stephen S Fong & Bernhard Ø Palsson - 1-11 Complex Parameter Landscape for a Complex Neuron Model
by Pablo Achard & Erik De Schutter - 1-17 Wiggle—Predicting Functionally Flexible Regions from Primary Sequence
by Jenny Gu & Michael Gribskov & Philip E Bourne
June 2006, Volume 2, Issue 6
- 1-8 Assessing the Accuracy of Ancestral Protein Reconstruction Methods
by Paul D Williams & David D Pollock & Benjamin P Blackburne & Richard A Goldstein - 1-9 Parametric Alignment of Drosophila Genomes
by Colin N Dewey & Peter M Huggins & Kevin Woods & Bernd Sturmfels & Lior Pachter - 1-10 How Does Cross-Reactive Stimulation Affect the Longevity of CD8+ T Cell Memory?
by Vitaly V Ganusov & Sergei S Pilyugin & Rafi Ahmed & Rustom Antia - 1-11 A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules
by 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 & Alessandro Sette
May 2006, Volume 2, Issue 5
- 1-8 Statistics of Knots, Geometry of Conformations, and Evolution of Proteins
by Rhonald C Lua & Alexander Y Grosberg - 1-10 Inferring Loss-of-Heterozygosity from Unpaired Tumors Using High-Density Oligonucleotide SNP Arrays
by 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 & Cheng Li - 1-10 Iterative Reconstruction of Transcriptional Regulatory Networks: An Algorithmic Approach
by Christian L Barrett & Bernhard O Palsson - 1-12 Reverse Engineering the Gap Gene Network of Drosophila melanogaster
by Theodore J Perkins & Johannes Jaeger & John Reinitz & Leon Glass
April 2006, Volume 2, Issue 4
- 1-2 The Signal in the Genomes
by David Sankoff - 1-10 Practical Strategies for Discovering Regulatory DNA Sequence Motifs
by Kenzie D MacIsaac & Ernest Fraenkel - 1-13 Conformational Changes in Protein Loops and Helices Induced by Post-Translational Phosphorylation
by Eli S Groban & Arjun Narayanan & Matthew P Jacobson - 1-13 Codon Usage Domains over Bacterial Chromosomes
by Marc Bailly-Bechet & Antoine Danchin & Mudassar Iqbal & Matteo Marsili & Massimo Vergassola
March 2006, Volume 2, Issue 3
- 1-10 Circadian Clocks Are Resounding in Peripheral Tissues
by Andrey A Ptitsyn & Sanjin Zvonic & Steven A Conrad & L Keith Scott & Randall L Mynatt & Jeffrey M Gimble
February 2006, Volume 2, Issue 2
- 1-2 Ten Simple Rules for Getting Grants
by Philip E Bourne & Leo M Chalupa - 1-9 Seriation in Paleontological Data Using Markov Chain Monte Carlo Methods
by Kai Puolamäki & Mikael Fortelius & Heikki Mannila
December 2005, Volume 1, Issue 7
- 1-8 New Maximum Likelihood Estimators for Eukaryotic Intron Evolution
by Hung D Nguyen & Maki Yoshihama & Naoya Kenmochi - 1-23 PhyloGibbs: A Gibbs Sampling Motif Finder That Incorporates Phylogeny
by Rahul Siddharthan & Eric D Siggia & Erik van Nimwegen
November 2005, Volume 1, Issue 6
- 1-2 Bioinformatics Education—Perspectives and Challenges
by Shoba Ranganathan - 1-7 Quantitative Analysis of Genetic and Neuronal Multi-Perturbation Experiments
by Alon Kaufman & Alon Keinan & Isaac Meilijson & Martin Kupiec & Eytan Ruppin - 1-10 A Guild of 45 CRISPR-Associated (Cas) Protein Families and Multiple CRISPR/Cas Subtypes Exist in Prokaryotic Genomes
by Daniel H Haft & Jeremy Selengut & Emmanuel F Mongodin & Karen E Nelson - 1-13 Use of Artificial Genomes in Assessing Methods for Atypical Gene Detection
by Rajeev K Azad & Jeffrey G Lawrence
October 2005, Volume 1, Issue 5
- 1-1 Protein Molecular Function Prediction by Bayesian Phylogenomics
by Barbara E Engelhardt & Michael I Jordan & Kathryn E Muratore & Steven E Brenner - 1-2 Ten Simple Rules for Getting Published
by Philip E Bourne - 1-6 The ISCB: Growing and Evolving in Step with Science
by Michael Gribskov - 1-13 Genomic Variability within an Organism Exposes Its Cell Lineage Tree
by Dan Frumkin & Adam Wasserstrom & Shai Kaplan & Uriel Feige & Ehud Shapiro
September 2005, Volume 1, Issue 4
- 1-1 Inferring Hypotheses on Functional Relationships of Genes: Analysis of the Arabidopsis thaliana Subtilase Gene Family
by Carsten Rautengarten & Dirk Steinhauser & Dirk Büssis & Annick Stintzi & Andreas Schaller & Joachim Kopka & Thomas Altmann
July 2005, Volume 1, Issue 2
- 1-1 Recognition of Unknown Conserved Alternatively Spliced Exons
by Uwe Ohler & Noam Shomron & Christopher B Burge
June 2005, Volume 1, Issue 1
- 1-1 Combinatorial Pattern Discovery Approach for the Folding Trajectory Analysis of a β -Hairpin
by Laxmi Parida & Ruhong Zhou