Accepted
Papers A Random Graph Approach to NMR Sequential Assignment Interface Surfaces for Protein-Protein Complexes Probabilistic Discovery of Overlapping Cellular Processes and Their Regulation Learning Multiple Evolutionary Pathways from Cross-sectional Data Multiple Organism Gene Finding by Collapsed Gibbs Sampling Protein Similarity from Knot Theory and Geometric Convolution From Profiles to Patterns and Back Again: A Branch and Bound Algorithm for Finding Optimal Motif Profiles Discovering temporal relations in molecular pathways using protein-protein interactions Reconciliation problems for duplication, loss and horizontal gene transfer Simultaneous Identification of Duplications and Lateral Transfers Perfect Phylogeny and Haplotype Assignment Identifying Conserved Gene Clusters in the Presence of Orthologous Groups Mining spatial motifs from protein structure graphs Aligning alignments exactly Maximum Likelihood Resolution of Multi-block Genotypes Checking homogeneity of motifs distribution in heterogenous sequences Finding Motifs for Insufficient Number of Sequences with Strong Binding to Transcription Factor A Class of Edit Kernels for SVMs to Predict Translation Initiation Sites in Eukaryotic mRNAs An exact solution for finding minimum recombinant haplotype configurations on pedigrees with missing data by integer linear programming A Novel Ensemble-Based Scoring and Search Algorithm for Protein Redesign, and its Application to Modify the Substrate Specificity of the Gramicidin Synthetase A Phenylalanine Adenylation Enzyme Finding anchors for genomic sequence comparison Wrap-and-Pack: A New Paradigm for Beta Structural Motif Recognition with Ap The Evolutionary Capacity of Protein Structures Structured Motifs Search Reconstructing Reticulate Evolution in Species - Theory and Practice Hybrid-GMM-Matching toward Comparing Embryogenesis-Staining-Pattern- Images of Drosophila melanogaster and Finding Co-Regulated Genes De novo Repeat Classification and Fragment Assembly Chromosomal breakpoint re-use in the inference of genome sequence rearrangement A Discriminative Model for Identifying Spatial Cis-Regulatory Modules Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data Computational identification of evolutionarily conserved exons Designing multiple simultaneous seeds for DNA similarity search Using Motion Planning to Study RNA Folding Kinetics Faster genome annotation of non-coding RNA families without loss of accuracy Finding Approximate Tandem Repeats in Genomic Sequences Stochastic Models Based on Molecular Hybridization Theory for Short Oligonucleotide Microarrays Finding short DNA Motifs Using Permuted Markov Models |