REVIEW:

Kelly A. Frazer, Laura Elnitski, Deanna M. Church, Inna Dubchak, and Ross C. Hardison

Cross-Species Sequence Comparisons: A Review of Methods and Available Resources
Genome Res. 2003 13: 1-12. [Abstract] [Full Text] [Supplemental Research Data]  

ARTICLES:

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

Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian Evolution
Genome Res. 2003 13: 13-26. [Abstract] [Full Text] [Supplemental Research Data]  

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

Reevaluating Human Gene Annotation: A Second-Generation Analysis of Chromosome 22
Genome Res. 2003 13: 27-36. Published in Advance December 30, 2002, 10.1101/gr.695703 [Abstract] [Full Text] [Supplemental Research Data]  

Pavel Pevzner and Glenn Tesler

Genome Rearrangements in Mammalian Evolution: Lessons From Human and Mouse Genomes
Genome Res. 2003 13: 37-45. Published in Advance December 30, 2002, 10.1101/gr.757503 [Abstract] [Full Text] [Supplemental Research Data]  

LETTERS:

Paul Flicek, Evan Keibler, Ping Hu, Ian Korf, and Michael R. Brent

Leveraging the Mouse Genome for Gene Prediction in Human: From Whole-Genome Shotgun Reads to a Global Synteny Map
Genome Res. 2003 13: 46-54. [Abstract] [Full Text]  

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

Pericentromeric Duplications in the Laboratory Mouse
Genome Res. 2003 13: 55-63. [Abstract] [Full Text] [Supplemental Research Data]  

Laura Elnitski, Ross C. Hardison, Jia Li, Shan Yang, Diana Kolbe, Pallavi Eswara, Michael J. O'Connor, Scott Schwartz, Webb Miller, and Francesca Chiaromonte

Distinguishing Regulatory DNA From Neutral Sites
Genome Res. 2003 13: 64-72. [Abstract] [Full Text]  

Olivier Couronne, Alexander Poliakov, Nicolas Bray, Tigran Ishkhanov, Dmitriy Ryaboy, Edward Rubin, Lior Pachter, and Inna Dubchak

Strategies and Tools for Whole-Genome Alignments
Genome Res. 2003 13: 73-80. [Abstract] [Full Text]  

METHODS:

James C. Mullikin and Zemin Ning

The Phusion Assembler
Genome Res. 2003 13: 81-90. Published in Advance December 30, 2002, 10.1101/gr.731003 [Abstract] [Full Text]  

David B. Jaffe, Jonathan Butler, Sante Gnerre, Evan Mauceli, Kerstin Lindblad-Toh, Jill P. Mesirov, Michael C. Zody, and Eric S. Lander

Whole-Genome Sequence Assembly for Mammalian Genomes: Arachne 2
Genome Res. 2003 13: 91-96. [Abstract] [Full Text]  

Nick Bray, Inna Dubchak, and Lior Pachter

AVID: A Global Alignment Program
Genome Res. 2003 13: 97-102. Published in Advance December 30, 2002, 10.1101/gr.789803 [Abstract] [Full Text]  

Scott Schwartz, W. James Kent, Arian Smit, Zheng Zhang, Robert Baertsch, Ross C. Hardison, David Haussler, and Webb Miller

Human-Mouse Alignments with BLASTZ
Genome Res. 2003 13: 103-107. [Abstract] [Full Text]  

Genís Parra, Pankaj Agarwal, Josep F. Abril, Thomas Wiehe, James W. Fickett, and Roderic Guigó

Comparative Gene Prediction in Human and Mouse
Genome Res. 2003 13: 108-117. [Abstract] [Full Text]  

Yeong-Gwon Park, Robert Clifford, Kenneth H. Buetow, and Kent W. Hunter

Multiple Cross and Inbred Strain Haplotype Mapping of Complex-Trait Candidate Genes
Genome Res. 2003 13: 118-121. [Abstract] [Full Text]  

RESOURCES:

Lucy B. Rowe, Mary E. Barter, Jennifer A. Kelmenson, and Janan T. Eppig

The Comprehensive Mouse Radiation Hybrid Map Densely Cross-Referenced to the Recombination Map: A Tool to Support the Sequence Assemblies
Genome Res. 2003 13: 122-133. Published in Advance December 30, 2002, 10.1101/gr.858103 [Abstract] [Full Text] [Supplemental Research Data]  

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