Research in Computational Molecular Biology: 19th Annual International Conference, RECOMB 2015, Warsaw, Poland, April 12-15, 2015, Proceedings

Front Matter....Pages I-XVII
Efficient Alignment Free Sequence Comparison with Bounded Mismatches....Pages 1-12
DockStar: A Novel ILP Based Integrative Method for Structural Modelling of Multimolecular Protein Complexes (Extended Abstract)....Pages 13-15
CRISPR Detection from Short Reads Using Partial Overlap Graphs....Pages 16-27
HapTree-X: An Integrative Bayesian Framework for Haplotype Reconstruction from Transcriptome and Genome Sequencing Data....Pages 28-29
Read Clouds Uncover Variation in Complex Regions of the Human Genome....Pages 30-31
Learning Microbial Interaction Networks from Metagenomic Count Data....Pages 32-43
Immunoglobulin Classification Using the Colored Antibody Graph....Pages 44-59
CIDANE: Comprehensive Isoform Discovery and Abundance Estimation....Pages 60-61
Diffusion Component Analysis: Unraveling Functional Topology in Biological Networks....Pages 62-64
Fragmentation Trees Reloaded....Pages 65-79
KGSrna: Efficient 3D Kinematics-Based Sampling for Nucleic Acids....Pages 80-95
Locating a Tree in a Phylogenetic Network in Quadratic Time....Pages 96-107
Constructing Structure Ensembles of Intrinsically Disordered Proteins from Chemical Shift Data....Pages 108-121
 Comets (Constrained Optimization of Multistate Energies by Tree Search): A Provable and Efficient Algorithm to Optimize Binding Affinity and Specificity with Respect to Sequence....Pages 122-135
Efficient and Accurate Multiple-Phenotypes Regression Method for High Dimensional Data Considering Population Structure....Pages 136-153
BWM*: A Novel, Provable, Ensemble-Based Dynamic Programming Algorithm for Sparse Approximations of Computational Protein Design....Pages 154-166
An Efficient Nonlinear Regression Approach for Genome-Wide Detection of Marginal and Interacting Genetic Variations....Pages 167-187
Exploration of Designability of Proteins Using Graph Features of Contact Maps: Beyond Lattice Models....Pages 188-201
CoMEt: A Statistical Approach to Identify Combinations of Mutually Exclusive Alterations in Cancer....Pages 202-204
Deep Feature Selection: Theory and Application to Identify Enhancers and Promoters....Pages 205-217
Protein Contact Prediction by Integrating Joint Evolutionary Coupling Analysis and Supervised Learning....Pages 218-221
ScaffMatch: Scaffolding Algorithm Based on Maximum Weight Matching....Pages 222-223
A Symmetric Length-Aware Enrichment Test....Pages 224-242
Functional Alignment of Metabolic Networks....Pages 243-255
Joint Inference of Genome Structure and Content in Heterogeneous Tumor Samples....Pages 256-258
Ultra-Large Alignments Using Ensembles of Hidden Markov Models....Pages 259-260
Topological Signatures for Population Admixture....Pages 261-275
Haplotype Allele Frequency (HAF) Score: Predicting Carriers of Ongoing Selective Sweeps Without Knowledge of the Adaptive Allele....Pages 276-280
Gap Filling as Exact Path Length Problem....Pages 281-292
Deconvolution of Ensemble Chromatin Interaction Data Reveals the Latent Mixing Structures in Cell Subpopulations....Pages 293-308
A Fast and Exact Algorithm for the Exemplar Breakpoint Distance....Pages 309-322
Deciding When to Stop: Efficient Experimentation to Learn to Predict Drug-Target Interactions (Extended Abstract)....Pages 323-325
On the Sample Complexity of Cancer Pathways Identification....Pages 326-337
A Novel Probabilistic Methodology for eQTL Analysis of Signaling Networks....Pages 338-339
Rapidly Registering Identity-by-Descent Across Ancestral Recombination Graphs....Pages 340-353
Computational Protein Design Using AND/OR Branch-and-Bound Search....Pages 354-366
Back Matter....Pages 367-368