Bioinformatics Research and Applications

th The 6 International Symposium on Bioinformatics Research and Applications (ISBRA2010)washeldduringMay23 26,2010attheUniversityofConnecticut, Storrs, Connecticut. The symposium provided a forum for the exchange of new results and ideas among researchers, developers, and practitioners working on all aspects of bioinformatics, computational biology, and their applications. The program of the symposium included 20 contributed papers selected by the ProgramCommittee from 57 submissions received in response to the call for papers. The symposium also included poster presentations and featured invited keynote talks by six distinguished speakers: Catalin Barbacioru from Life Te- nologies spoke on tracing the early cell divisions of mouse embryos by single cell RNA-seq, Piotr Berman from Pennsylvania State University spoke on successes and failures of elegant algorithms in computational biology, Mark Gerstein from Yale University spoke on human genome annotation, Ivan Ovcharenko from the National Center for Biotechnology Information spoke on the structure of pro- mal and distant regulatory elements in the human genome, Laxmi Parida from the IBM T. J. Watson Research Center spoke on combinatorics in recombi- tional population genomics, and Mona Singh from Princeton University spoke on predicting and analyzing cellular networks. We would like to thank the Program Committee members and external - viewers for volunteering their time to review and discuss symposium papers.

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Inhalt
Tracing the Early Cell Divisions of Mouse Embryos by Single Cell RNA-Seq.- Successes and Failures of Elegant Algorithms in Computational Biology.- Modeling without Borders: Creating and Annotating VCell Models Using the Web.- Touring Protein Space with Matt.- Fixed-Parameter Algorithm for General Pedigrees with a Single Pair of Sites.- Analysis of Temporal-spatial Co-variation within Gene Expression Microarray Data in an Organogenesis Model.- Human Genome Annotation.- Extensions and Improvements to the Chordal Graph Approach to the Multi-state Perfect Phylogeny Problem.- Analysis of Gene Interactions Using Restricted Boolean Networks and Time-Series Data.- Residue Contexts: Non-sequential Protein Structure Alignment Using Structural and Biochemical Features.- Essential Proteins Discovery from Weighted Protein Interaction Networks.- Identifying Differentially Abundant Metabolic Pathways in Metagenomic Datasets.- A Novel Approach for Compressing Phylogenetic Trees.- Structure of Proximal and Distant Regulatory Elements in the Human Genome.- Combinatorics in Recombinational Population Genomics.- Uncovering Hidden Phylogenetic Consensus.- An Agglomerate Algorithm for Mining Overlapping and Hierarchical Functional Modules in Protein Interaction Networks.- Fast Protein Structure Alignment.- Predicting and Analyzing Cellular Networks.- A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure.- Inferring Evolutionary Scenarios for Protein Domain Compositions.- Local Structural Alignment of RNA with Affine Gap Model.- Fast Computation of the Exact Hybridization Number of Two Phylogenetic Trees.- Master-Slave Biological Network Alignment.- Deciphering Transcription Factor Binding Patterns from Genome-Wide High DensityChIP-chip Tiling Array Data.- The Expected Fitness Cost of a Mutation Fixation under the One-Dimensional Fisher Model.