Table of Contents

January 2003; 13 (1)

REVIEW

  • REVIEW:

    Cross-Species Sequence Comparisons: A Review of Methods and Available Resources

    • Kelly A. Frazer,
    • Laura Elnitski,
    • Deanna M. Church,
    • Inna Dubchak,
    • and Ross C. Hardison
    Genome Res. January 1, 2003 13:1-12; doi:10.1101/gr.222003

ARTICLES

  • ARTICLE:

    Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian Evolution

    • Ross C. Hardison,
    • Krishna M. Roskin,
    • Shan Yang,
    • Mark Diekhans,
    • W. James Kent,
    • Ryan Weber,
    • Laura Elnitski,
    • Jia Li,
    • Michael O'Connor,
    • Diana Kolbe,
    • Scott Schwartz,
    • Terrence S. Furey,
    • Simon Whelan,
    • Nick Goldman,
    • Arian Smit,
    • Webb Miller,
    • Francesca Chiaromonte,
    • and David Haussler
    Genome Res. January 1, 2003 13:13-26; doi:10.1101/gr.844103
  • ARTICLE:

    Reevaluating Human Gene Annotation: A Second-Generation Analysis of Chromosome 22

    • John E. Collins,
    • Melanie E. Goward,
    • Charlotte G. Cole,
    • Luc J. Smink,
    • Elizabeth J. Huckle,
    • Sarah Knowles,
    • Jacqueline M. Bye,
    • David M. Beare,
    • and Ian Dunham
    Genome Res. January 1, 2003 13:27-36; Published in Advance December 30, 2002, doi:10.1101/gr.695703
  • ARTICLE:

    Genome Rearrangements in Mammalian Evolution: Lessons From Human and Mouse Genomes

    • Pavel Pevzner
    • and Glenn Tesler
    Genome Res. January 1, 2003 13:37-45; Published in Advance December 30, 2002, doi:10.1101/gr.757503

LETTERS

  • LETTER:

    Leveraging the Mouse Genome for Gene Prediction in Human: From Whole-Genome Shotgun Reads to a Global Synteny Map

    • Paul Flicek,
    • Evan Keibler,
    • Ping Hu,
    • Ian Korf,
    • and Michael R. Brent
    Genome Res. January 1, 2003 13:46-54; doi:10.1101/gr.830003
  • LETTER:

    Pericentromeric Duplications in the Laboratory Mouse

    • James W. Thomas,
    • Mary G. Schueler,
    • Tyrone J. Summers,
    • Robert W. Blakesley,
    • Jennifer C. McDowell,
    • Pamela J. Thomas,
    • Jacquelyn R. Idol,
    • Valerie V.B. Maduro,
    • Shih-Queen Lee-Lin,
    • Jeffrey W. Touchman,
    • Gerard G. Bouffard,
    • Stephen M. Beckstrom-Sternberg,
    • NISC Comparative Sequencing Program,
    • and Eric D. Green
    Genome Res. January 1, 2003 13:55-63; Published in Advance December 30, 2002, doi:10.1101/gr.791403
  • LETTER:

    Distinguishing Regulatory DNA From Neutral Sites

    • Laura Elnitski,
    • Ross C. Hardison,
    • Jia Li,
    • Shan Yang,
    • Diana Kolbe,
    • Pallavi Eswara,
    • Michael J. O'Connor,
    • Scott Schwartz,
    • Webb Miller,
    • and Francesca Chiaromonte
    Genome Res. January 1, 2003 13:64-72; doi:10.1101/gr.817703
  • LETTER:

    Strategies and Tools for Whole-Genome Alignments

    • Olivier Couronne,
    • Alexander Poliakov,
    • Nicolas Bray,
    • Tigran Ishkhanov,
    • Dmitriy Ryaboy,
    • Edward Rubin,
    • Lior Pachter,
    • and Inna Dubchak
    Genome Res. January 1, 2003 13:73-80; doi:10.1101/gr.762503

METHODS

  • METHODS:

    The Phusion Assembler

    • James C. Mullikin
    • and Zemin Ning
    Genome Res. January 1, 2003 13:81-90; Published in Advance December 30, 2002, doi:10.1101/gr.731003
  • METHODS:

    Whole-Genome Sequence Assembly for Mammalian Genomes: Arachne 2

    • David B. Jaffe,
    • Jonathan Butler,
    • Sante Gnerre,
    • Evan Mauceli,
    • Kerstin Lindblad-Toh,
    • Jill P. Mesirov,
    • Michael C. Zody,
    • and Eric S. Lander
    Genome Res. January 1, 2003 13:91-96; doi:10.1101/gr.828403
  • METHODS:

    AVID: A Global Alignment Program

    • Nick Bray,
    • Inna Dubchak,
    • and Lior Pachter
    Genome Res. January 1, 2003 13:97-102; Published in Advance December 30, 2002, doi:10.1101/gr.789803
  • METHODS:

    Human–Mouse Alignments with BLASTZ

    • Scott Schwartz,
    • W. James Kent,
    • Arian Smit,
    • Zheng Zhang,
    • Robert Baertsch,
    • Ross C. Hardison,
    • David Haussler,
    • and Webb Miller
    Genome Res. January 1, 2003 13:103-107; Published in Advance December 30, 2002, doi:10.1101/gr.809403
  • METHODS:

    Comparative Gene Prediction in Human and Mouse

    • Genı́s Parra,
    • Pankaj Agarwal,
    • Josep F. Abril,
    • Thomas Wiehe,
    • James W. Fickett,
    • and Roderic Guigó
    Genome Res. January 1, 2003 13:108-117; doi:10.1101/gr.871403
  • METHODS:

    Multiple Cross and Inbred Strain Haplotype Mapping of Complex-Trait Candidate Genes

    • Yeong-Gwon Park,
    • Robert Clifford,
    • Kenneth H. Buetow,
    • and Kent W. Hunter
    Genome Res. January 1, 2003 13:118-121; doi:10.1101/gr.786403

RESOURCE

  • RESOURCE:

    The Comprehensive Mouse Radiation Hybrid Map Densely Cross-Referenced to the Recombination Map: A Tool to Support the Sequence Assemblies

    • Lucy B. Rowe,
    • Mary E. Barter,
    • Jennifer A. Kelmenson,
    • and Janan T. Eppig
    Genome Res. January 1, 2003 13:122-133; Published in Advance December 30, 2002, doi:10.1101/gr.858103
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January 2003; 13 (1)
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  1. REVIEW
  2. ARTICLES
  3. LETTERS
  4. METHODS
  5. RESOURCE

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