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Comparative Genomics

International Workshop, RECOMB-CG 2008, Paris, France, October 13-15, 2008, Proceedings

  • Conference proceedings
  • © 2008

Overview

Editors:
  1. Craig E. Nelson

    1. Molecular and Cell Biology, University of Connecticut, Division of Genetics and Genomics, Storrs, USA

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  2. Stéphane Vialette

    1. Université Paris-Est, IGM-LabInfo, Marne la Vallée, France

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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 5267)

Part of the book sub series: Lecture Notes in Bioinformatics (LNBI)

Included in the following conference series:

Conference proceedings info: RECOMB-CG 2008.

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About this book

This book constitutes the refereed proceedings of the 6th RECOMB Comparative Genomics Satellite Workshop, RECOMB-CG 2008, held in Paris, France, in October 2008. The 19 revised full papers presented were carefully reviewed and selected from 48 initial submissions. The papers illustrate the crucial role of comparative genomics in understanding genome function and address a broad variety of aspects, ranging from the inference of evolution in genetic regulatory networks to the divergent fates of gene and genome duplication events and to the importance of new computational approaches to unraveling the structural evolution of genomes.

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Table of contents (19 papers)

  1. Front Matter

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  2. Algorithms for Exploring the Space of Gene Tree/Species Tree Reconciliations

    • Jean-Philippe Doyon, Cedric Chauve, Sylvie Hamel
    Pages 1-13

  3. Limitations of Pseudogenes in Identifying Gene Losses

    • James C. Costello, Mira V. Han, Matthew W. Hahn
    Pages 14-25

  4. Duplication Mechanism and Disruptions in Flanking Regions Influence the Fate of Mammalian Gene Duplicates

    • Paul Ryvkin, Jin Jun, Edward Hemphill, Craig Nelson
    Pages 26-39

  5. Estimating the Relative Contributions of New Genes from Retrotransposition and Segmental Duplication Events during Mammalian Evolution

    • Jin Jun, Paul Ryvkin, Edward Hemphill, Ion Măndoiu, Craig Nelson
    Pages 40-54

  6. Discovering Local Patterns of Co-evolution

    • Yifat Felder, Tamir Tuller
    Pages 55-71

  7. Ancestral Reconstruction by Asymmetric Wagner Parsimony over Continuous Characters and Squared Parsimony over Distributions

    • Miklós Csűrös
    Pages 72-86

  8. An Alignment-Free Distance Measure for Closely Related Genomes

    • Bernhard Haubold, Mirjana Domazet-Los̆o, Thomas Wiehe
    Pages 87-99

  9. Gene Team Tree: A Compact Representation of All Gene Teams

    • Melvin Zhang, Hon Wai Leong
    Pages 100-112

  10. Integrating Sequence and Topology for Efficient and Accurate Detection of Horizontal Gene Transfer

    • Cuong Than, Guohua Jin, Luay Nakhleh
    Pages 113-127

  11. An Evolutionary Study of the Human Papillomavirus Genomes

    • Dunarel Badescu, Abdoulaye Baniré Diallo, Mathieu Blanchette, Vladimir Makarenkov
    Pages 128-142

  12. An Algorithm for Inferring Mitogenome Rearrangements in a Phylogenetic Tree

    • Matthias Bernt, Daniel Merkle, Martin Middendorf
    Pages 143-157

  13. Perfect DCJ Rearrangement

    • Sèverine Bérard, Annie Chateau, Cedric Chauve, Christophe Paul, Eric Tannier
    Pages 158-169

  14. Sorting Genomes with Insertions, Deletions and Duplications by DCJ

    • Sophia Yancopoulos, Richard Friedberg
    Pages 170-183

  15. A Fast and Exact Algorithm for the Median of Three Problem—A Graph Decomposition Approach

    • Andrew Wei Xu
    Pages 184-197

  16. A Phylogenetic Approach to Genetic Map Refinement

    • Denis Bertrand, Mathieu Blanchette, Nadia El-Mabrouk
    Pages 198-210

  17. Sorting Cancer Karyotypes by Elementary Operations

    • Michal Ozery-Flato, Ron Shamir
    Pages 211-225

  18. On Computing the Breakpoint Reuse Rate in Rearrangement Scenarios

    • Anne Bergeron, Julia Mixtacki, Jens Stoye
    Pages 226-240

  19. Hurdles Hardly Have to Be Heeded

    • Krister M. Swenson, Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
    Pages 241-251

  20. Internal Validation of Ancestral Gene Order Reconstruction in Angiosperm Phylogeny

    • David Sankoff, Chunfang Zheng, P. Kerr Wall, Claude dePamphilis, Jim Leebens-Mack, Victor A. Albert
    Pages 252-264
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Other volumes

  1. Comparative Genomics

Editors and Affiliations

  • Molecular and Cell Biology, University of Connecticut, Division of Genetics and Genomics, Storrs, USA

    Craig E. Nelson

  • Université Paris-Est, IGM-LabInfo, Marne la Vallée, France

    Stéphane Vialette

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