Petals and stamens are partially transformed into sepals and carpels, respectively. On the left, the graphical representations of gene regulatory networks help visualize how the obligate heterodimerization of class B floral homeotic genes may have arisen. One ancestral self-activating gene (top) is duplicated (middle), and subsequently, both transcription factors lose their homodimerization ability, leading to obligate heterodimerization (bottom) (see Lenser et al., doi:10.1371/journal.pcbi.1000264). The latter mechanism is found in Arabidopsis thaliana and other angiosperms.
Image Credit: Günter Theißen and Thorsten Lenser (University of Jena).
Editorial
A Review of 2008 for PLoS Computational Biology
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000275
Message from ISCB
Microblogging the ISMB: A New Approach to Conference Reporting
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000263
Education
A Primer on Regression Methods for Decoding cis-Regulatory Logic
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000269
Research Articles
Questioning the Ubiquity of Neofunctionalization
PLOS Computational Biology: published January 2, 2009 | https://doi.org/10.1371/journal.pcbi.1000252
Polyamine Sharing between Tubulin Dimers Favours Microtubule Nucleation and Elongation via Facilitated Diffusion
PLOS Computational Biology: published January 2, 2009 | https://doi.org/10.1371/journal.pcbi.1000255
Shape, Size, and Robustness: Feasible Regions in the Parameter Space of Biochemical Networks
PLOS Computational Biology: published January 2, 2009 | https://doi.org/10.1371/journal.pcbi.1000256
Predicting Cellular Growth from Gene Expression Signatures
PLOS Computational Biology: published January 2, 2009 | https://doi.org/10.1371/journal.pcbi.1000257
Evolutionary Sequence Modeling for Discovery of Peptide Hormones
PLOS Computational Biology: published January 9, 2009 | https://doi.org/10.1371/journal.pcbi.1000258
Deterministic Mechanical Model of T-Killer Cell Polarization Reproduces the Wandering of Aim between Simultaneously Engaged Targets
PLOS Computational Biology: published January 9, 2009 | https://doi.org/10.1371/journal.pcbi.1000260
An Analysis of Enzyme Kinetics Data for Mitochondrial DNA Strand Termination by Nucleoside Reverse Transcription Inhibitors
PLOS Computational Biology: published January 9, 2009 | https://doi.org/10.1371/journal.pcbi.1000261
State Based Model of Long-Term Potentiation and Synaptic Tagging and Capture
PLOS Computational Biology: published January 16, 2009 | https://doi.org/10.1371/journal.pcbi.1000259
Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods
PLOS Computational Biology: published January 16, 2009 | https://doi.org/10.1371/journal.pcbi.1000262
Developmental Robustness by Obligate Interaction of Class B Floral Homeotic Genes and Proteins
PLOS Computational Biology: published January 16, 2009 | https://doi.org/10.1371/journal.pcbi.1000264
Action Potential Initiation in the Hodgkin-Huxley Model
PLOS Computational Biology: published January 16, 2009 | https://doi.org/10.1371/journal.pcbi.1000265
Partial Order Optimum Likelihood (POOL): Maximum Likelihood Prediction of Protein Active Site Residues Using 3D Structure and Sequence Properties
PLOS Computational Biology: published January 16, 2009 | https://doi.org/10.1371/journal.pcbi.1000266
Joint Evolutionary Trees: A Large-Scale Method To Predict Protein Interfaces Based on Sequence Sampling
PLOS Computational Biology: published January 23, 2009 | https://doi.org/10.1371/journal.pcbi.1000267
Computational Modeling of the Hematopoietic Erythroid-Myeloid Switch Reveals Insights into Cooperativity, Priming, and Irreversibility
PLOS Computational Biology: published January 23, 2009 | https://doi.org/10.1371/journal.pcbi.1000268
Astrocytic Mechanisms Explaining Neural-Activity-Induced Shrinkage of Extraneuronal Space
PLOS Computational Biology: published January 23, 2009 | https://doi.org/10.1371/journal.pcbi.1000272
Model-Based Therapeutic Correction of Hypothalamic-Pituitary-Adrenal Axis Dysfunction
PLOS Computational Biology: published January 23, 2009 | https://doi.org/10.1371/journal.pcbi.1000273
Coordinated Concentration Changes of Transcripts and Metabolites in Saccharomyces cerevisiae
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000270
Efficient Network Reconstruction from Dynamical Cascades Identifies Small-World Topology of Neuronal Avalanches
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000271
A Factor Graph Nested Effects Model To Identify Networks from Genetic Perturbations
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000274
Cohesive versus Flexible Evolution of Functional Modules in Eukaryotes
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000276
Poisson-Nernst-Planck Models of Nonequilibrium Ion Electrodiffusion through a Protegrin Transmembrane Pore
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000277
Prediction of Protein–Protein Interaction Sites in Sequences and 3D Structures by Random Forests
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000278
Precise Regulation of Gene Expression Dynamics Favors Complex Promoter Architectures
PLOS Computational Biology: published January 30, 2009 | https://doi.org/10.1371/journal.pcbi.1000279