Research in Computational Molecular Biology

Recomb Retrospectives.- The Second Decade of the International Conference on Research in Computational Molecular Biology (RECOMB).- Extended Abstracts.- A MAD-Bayes Algorithm for State-space Inference and Clustering with Application to Querying Large Collections of ChIP-Seq Data Sets.- Accurate Recovery of Ribosome Positions Reveals Slow Translation of Wobble-Pairing Codons in Yeast.- Multitask matrix completion for learning protein interactions across diseases.- pathTiMEx: Joint Inference of Mutually Exclusive Cancer Pathways and their Dependencies in Tumor Progression.- Clonality inference from single tumor samples using low coverage sequence data.- Flexible Modelling of Genetic Effects on Function-Valued Traits.- MetaFlow: Metagenomic profiling based on whole-genome coverage analysis with min-cost flows.- LUTE (Local Unpruned Tuple Expansion): Accurate continuously flexible protein design with general energy functions and rigid-rotamerlike efficiency.- Improving Bloom filter performance on sequence data using k-mer Bloom filters.-Safe and complete contig assembly via omnitigs.- Long single-molecule reads can resolve the complexity of the Influenza virus composed of rare, closely related mutant variants.-Structural variation detection with read pair information { An improved null-hypothesis reduces bias.- On Computing Breakpoint Distances for Genomes with Duplicate Genes.- New Genome Similarity Measures based on Conserved Gene Adjacencies.- Fast Phylogenetic Biodiversity Computations Under a Non-Uniform Random Distribution.- Short Abstracts.- SLICER: Inferring Branched, Nonlinear Cellular Trajectories from Single Cell RNA-seq Data.- Multi-track modeling for genome-scale reconstruction of 3D chromatin structure from Hi-C data.- Revealing the Genetic Basis of Immune Traits in the Absence of Experimental Immunophenotyping.- Shall we dense? Comparing design strategies for time series expression experiments.- Enabling Privacy-Preserving GWAS in Heterogeneous Human Populations.- Efficient Privacy-Preserving Read Mapping Using Locality Sensitive Hashing and Secure Kmer Voting.- Finding Mutated Subnetworks Associated with Survival Time in Cancer.- Multi-State Perfect Phylogeny Mixture Deconvolution and Applications to Cancer Sequencing.- Tree inference for single-cell data.- mLDM: a new hierarchical Bayesian statistical model for sparse microbial association discovery.- Low-density locality-sensitive hashing boosts metagenomic binning.- metaSPAdes: a new versatile de novo metagenomics assembler.- Distributed Gradient Descent in Bacterial Food Search.-AptaTRACE: Elucidating Sequence-Structure Binding Motifs by Uncovering Selection Trends in HT-SELEX Experiments.- Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression.- Allele-Specific Quantification of Structural Variations in Cancer Genomes.- Assembly of Long Error-Prone Reads Using de Bruijn Graphs.- Locating a Tree in a Reticulation-Visible Network in Cubic Time.- Joint alignment of multiple protein-protein interaction networks via convex optimization.- Complexes Detection in Biological Networks via Diversified Dense Subgraphs Mining.