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Algorithms in Bioinformatics

Second International Workshop, WABI 2002, Rome, Italy, September 17-21, 2002, Proceedings

  • Conference proceedings
  • © 2002

Overview

Editors:
  1. Roderic Guigó

    1. IMIM-UPF-CRG, Barcelona, Spain

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    You can also search for this editor in PubMed   Google Scholar

  2. Dan Gusfield

    1. Department of Computer Science, University of California, Davis, USA

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    You can also search for this editor in PubMed   Google Scholar

Part of the book series: Lecture Notes in Computer Science (LNCS, volume 2452)

Included in the following conference series:

Conference proceedings info: WABI 2002.

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Table of contents (41 papers)

  1. Front Matter

    Pages I-X
    Download chapter PDF

  2. Simultaneous Relevant Feature Identification and Classification in High-Dimensional Spaces

    • L. R. Grate, C. Bhattacharyya, M. I. Jordan, I. S. Mian
    Pages 1-9

  3. Pooled Genomic Indexing (PGI): Mathematical Analysis and Experiment Design

    • Miklós Csűrös, Aleksandar Milosavljevic
    Pages 10-28

  4. Practical Algorithms and Fixed-Parameter Tractability for the Single Individual SNP Haplotyping Problem

    • Romeo Rizzi, Vineet Bafna, Sorin Istrail, Giuseppe Lancia
    Pages 29-43

  5. Methods for Inferring Block-Wise Ancestral History from Haploid Sequences

    • Russell Schwartz, Andrew G. Clark, Sorin Istrail
    Pages 44-59

  6. Finding Signal Peptides in Human Protein Sequences Using Recurrent Neural Networks

    • Martin Reczko, Petko Fiziev, Eike Staub, Artemis Hatzigeorgiou
    Pages 60-67

  7. Generating Peptide Candidates from Amino-Acid Sequence Databases for Protein Identification via Mass Spectrometry

    • Nathan Edwards, Ross Lippert
    Pages 68-81

  8. Improved Approximation Algorithms for NMR Spectral Peak Assignment

    • Zhi-Zhong Chen, Tao Jiang, Guohui Lin, Jianjun Wen, Dong Xu, Ying Xu
    Pages 82-96

  9. Efficient Methods for Inferring Tandem Duplication History

    • Louxin Zhang, Bin Ma, Lusheng Wang
    Pages 97-111

  10. Genome Rearrangement Phylogeny Using Weighbor

    • Li-San Wang
    Pages 112-125

  11. Segment Match Refinement and Applications

    • Aaron L. Halpern, Daniel H. Huson, Knut Reinert
    Pages 126-139

  12. Extracting Common Motifs under the Levenshtein Measure: Theory and Experimentation

    • Ezekiel F. Adebiyi, Michael Kaufmann
    Pages 140-156

  13. Fast Algorithms for Finding Maximum-Density Segments of a Sequence with Applications to Bioinformatics

    • Michael H. Goldwasser, Kao Ming-Yang, Lu Hsueh-I
    Pages 157-171

  14. FAUST: An Algorithm for Extracting Functionally Relevant Templates from Protein Structures

    • Mariusz Milik, Sandor Szalma, Krzysztof A. Olszewski
    Pages 172-184

  15. Efficient Unbound Docking of Rigid Molecules

    • Dina Duhovny, Ruth Nussinov, Haim J. Wolfson
    Pages 185-200

  16. A Method of Consolidating and Combining EST and mRNA Alignments to a Genome to Enumerate Supported Splice Variants

    • Raymond Wheeler
    Pages 201-209

  17. A Method to Improve the Performance of Translation Start Site Detection and Its Application for Gene Finding

    • Mihaela Pertea, Steven L. Salzberg
    Pages 210-219

  18. Comparative Methods for Gene Structure Prediction in Homologous Sequences

    • Christian N.S. Pedersen, Tejs Scharling
    Pages 220-234

  19. MultiProt — A Multiple Protein Structural Alignment Algorithm

    • Maxim Shatsky, Ruth Nussinov, Haim J. Wolfson
    Pages 235-250

  20. A Hybrid Scoring Function for Protein Multiple Alignment

    • Emily Rocke
    Pages 251-262
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Other volumes

  1. Algorithms in Bioinformatics

Keywords

About this book

We are pleased to present the proceedings of the Second Workshop on Al- rithms in Bioinformatics (WABI 2002), which took place on September 17-21, 2002 in Rome, Italy. The WABI workshop was part of a three-conference me- ing, which, in addition to WABI, included the ESA and APPROX 2002. The three conferences are jointly called ALGO 2002, and were hosted by the F- ulty of Engineering, University of Rome “La Sapienza”. Seehttp://www.dis. uniroma1.it/˜algo02 for more details. The Workshop on Algorithms in Bioinformatics covers research in all areas of algorithmic work in bioinformatics and computational biology. The emphasis is on discrete algorithms that address important problems in molecular biology, genomics,andgenetics,thatarefoundedonsoundmodels,thatarecomputati- ally e?cient, and that have been implemented and tested in simulations and on real datasets. The goal is to present recent research results, including signi?cant work in progress, and to identify and explore directions of future research. Original research papers (including signi?cant work in progress) or sta- of-the-art surveys were solicited on all aspects of algorithms in bioinformatics, including, but not limited to: exact and approximate algorithms for genomics, genetics, sequence analysis, gene and signal recognition, alignment, molecular evolution, phylogenetics, structure determination or prediction, gene expression and gene networks, proteomics, functional genomics, and drug design.

Editors and Affiliations

  • IMIM-UPF-CRG, Barcelona, Spain

    Roderic Guigó

  • Department of Computer Science, University of California, Davis, USA

    Dan Gusfield

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