Bioinformatics Research and Applications

Next generation sequencing data analysis.- An Efficient Algorithm for finding all pairs k-mismatch maximal common substrings.- Poisson-Markov Mixture Model and Parallel Algorithm for Binning Massive and Heterogenous DNA Sequencing Reads.- FSG: Fast String Grap Construction for De Novo Assembly of reads data 25.- OVarCall: Bayesian Mutation Calling Method Utilizing Overlapping Paired-End Reads.- High performance sensing of DNA hybridization on surface of self-organized MWCNT-arrays decorated by organometallic complexes.- Towards a more accurate error model for BioNano optical maps.- HapIso : An Accurate Method for the Haplotype-Specific Isoforms Reconstruction from Long Single-Molecule Reads.- Protein-protein interactions and networks.- Genome-Wide Structural Modeling of Protein-Protein Interactions.- Identifying essential proteins by purifying protein interaction networks.- Differential functional analysis and change motifs in gene networks to explore the role of anti-sense transcription.- Predicting MicroRNA-disease associations by random walking on multiple networks.- Progression Reconstruction from Unsynchronized Biological Data using Cluster Spanning Trees.- Protein and RNA structure.- Consistent visualization of multiple rigid domain decompositions of Proteins.- A Multiagent Ab Initio Protein Structure Prediction Tool for Novices and Experts.- Filling a protein scaffold with a reference.- Phylogenetics.- Mean values of gene duplication and loss cost functions.- The SCJ small parsimony problem for weighted gene adjacencies.- Path-Difference Median Trees.- NEMo: An Evolutionary Model with Modularity for PPI Networks.- Multi-Genome Scaffold Co-Assembly Based on the Analysis of Gene Orders and Genomic Repeats.- Sequence and image analysis.- Selectoscope: a modern web-app for positive selection analysis of genomic data.- Methods for Genome-wide Analysis of MDR and XDR Tuberculosis from Belarus.- Haplotype Inference for Pedigrees with Few Recombinations.- Improved detection of 2D gel electrophoresis spots by using Gaussian mixture model.- Abridged Track 2 abstracts.- Predicting Combinative Drug Pairs via Integrating Heterogeneous Features for both Known and New Drugs.- SkipCPP-Pred: Promising Prediction Method for Cell-Penetrating Peptides Using Adaptive k-skip-n-gram Features on a High-quality Dataset.- CPredictor2.0: Effectively Detecting Both Small and Large Complexes from Protein-Protein Interaction Networks.- Structural Insights into Antiapoptotic Activation of Bcl-2 and Bcl-xL.- Mediated by FKBP38 and tBid.- VAliBS: a visual aligner for bisulfite sequences.- MegaGTA: a sensitive and accurate metagenomic Gene-Targeted Assembler using iterative de Bruijn graphs.- EnhancerDBN: An Enhancer Prediction Method Based on Deep Belief Network.- An improved burden-test pipeline for cancer sequencing data.- Modeling and Simulation of Specific Production of Trans10, cis12-Conjugated Linoleic Acid in the Biosynthetic Pathway.- Dynamic proteincomplex identification in uncertain protein-protein interaction networks.- Predicting lncRNA-Protein Interactions Based on Protein-Protein Similarity Network Fusion.- DCJ-RNA: Double Cut and Join for RNA Secondary Structures Using a Component-Based Representation.- Improve Short Read Homology Search using Paired-End Read Information.- Framework for integration of genome and exome data for more accurate identification of somatic variants.- Semantic Biclustering: a New Way to Analyze and Interpret Gene Expression Data.- Epistasis Analysis of microRNAs in Colon Cancer Using Empirical Bayesian Elastic Nets.- Tractable Kinetics of RNA-Ligand Interaction.- MitoDel: A Method to Detect and Quantify Mitochondrial DNA Deletions from Next-Generation Sequence Data.- TRANScendence: transposable elements database and de-novo mining tool allows inferring TEs activity chronology.- Phylogeny Reconstruction from Whole-Genome Data using Variable Length Binary Encoding.