Book Volume 9838 2016

Algorithms in Bioinformatics

16th International Workshop, WABI 2016, Aarhus, Denmark, August 22-24, 2016. Proceedings

Editors:

ISBN: 978-3-319-43680-7 (Print) 978-3-319-43681-4 (Online)

Table of contents (25 chapters)

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  1. Front Matter

    Pages I-XVII

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    Chapter and Conference Paper

    Pages 1-13

    Optimal Computation of Avoided Words

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    Chapter and Conference Paper

    Pages 14-26

    A Biclique Approach to Reference Anchored Gene Blocks and Its Applications to Pathogenicity Islands

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    Chapter and Conference Paper

    Pages 27-39

    An Efficient Branch and Cut Algorithm to Find Frequently Mutated Subnetworks in Cancer

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    Chapter and Conference Paper

    Pages 40-51

    Isometric Gene Tree Reconciliation Revisited

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    Chapter and Conference Paper

    Pages 52-64

    Further Improvement in Approximating the Maximum Duo-Preservation String Mapping Problem

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    Chapter and Conference Paper

    Pages 65-76

    SpecTrees: An Efficient Without a Priori Data Structure for MS/MS Spectra Identification

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    Chapter and Conference Paper

    Pages 77-89

    Predicting Core Columns of Protein Multiple Sequence Alignments for Improved Parameter Advising

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    Chapter and Conference Paper

    Pages 90-101

    Fast Compatibility Testing for Phylogenies with Nested Taxa

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    Chapter and Conference Paper

    Pages 102-120

    The Gene Family-Free Median of Three

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    Chapter and Conference Paper

    Pages 121-136

    Correction of Weighted Orthology and Paralogy Relations - Complexity and Algorithmic Results

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    Chapter and Conference Paper

    Pages 137-149

    Copy-Number Evolution Problems: Complexity and Algorithms

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    Chapter and Conference Paper

    Pages 150-161

    Gerbil: A Fast and Memory-Efficient k-mer Counter with GPU-Support

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    Chapter and Conference Paper

    Pages 162-173

    Genome Rearrangements on Both Gene Order and Intergenic Regions

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    Chapter and Conference Paper

    Pages 174-184

    Better Identification of Repeats in Metagenomic Scaffolding

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    Chapter and Conference Paper

    Pages 185-196

    A Better Scoring Model for De Novo Peptide Sequencing: The Symmetric Difference Between Explained and Measured Masses

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    Chapter and Conference Paper

    Pages 197-209

    StreAM- \(T_g\) : Algorithms for Analyzing Coarse Grained RNA Dynamics Based on Markov Models of Connectivity-Graphs

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    Chapter and Conference Paper

    Pages 210-221

    Solving Generalized Maximum-Weight Connected Subgraph Problem for Network Enrichment Analysis

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    Chapter and Conference Paper

    Pages 222-233

    A Natural Encoding of Genetic Variation in a Burrows-Wheeler Transform to Enable Mapping and Genome Inference

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    Chapter and Conference Paper

    Pages 234-245

    Inferring Population Genetic Parameters: Particle Filtering, HMM, Ripley’s K-Function or Runs of Homozygosity?

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    Chapter and Conference Paper

    Pages 246-256

    A Graph Extension of the Positional Burrows-Wheeler Transform and Its Applications

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