ARTICLES:

Pawel Stankiewicz, Christine J. Shaw, Marjorie Withers, Ken Inoue, and James R. Lupski

Serial segmental duplications during primate evolution result in complex human genome architecture
Genome Res. 2004 14: 2209-2220. [Abstract] [Full Text]  

Nitin S. Baliga, Richard Bonneau, Marc T. Facciotti, Min Pan, Gustavo Glusman, Eric W. Deutsch, Paul Shannon, Yulun Chiu, Rueyhung Sting Weng, Rueichi Richie Gan, Pingliang Hung, Shailesh V. Date, Edward Marcotte, Leroy Hood, and Wailap Victor Ng

Genome sequence of Haloarcula marismortui: A halophilic archaeon from the Dead Sea
Genome Res. 2004 14: 2221-2234. [Abstract] [Full Text] [Supplemental Research Data]  

LETTERS:

Robert W. Blakesley, Nancy F. Hansen, James C. Mullikin, Pamela J. Thomas, Jennifer C. McDowell, Baishali Maskeri, Alice C. Young, Beatrice Benjamin, Shelise Y. Brooks, Bradley I. Coleman, Jyoti Gupta, Shi-Ling Ho, Eric M. Karlins, Quino L. Maduro, Sirintorn Stantripop, Cyrus Tsurgeon, Jennifer L. Vogt, Michelle A. Walker, Catherine A. Masiello, Xiaobin Guan, NISC Comparative Sequencing Program, Gerard G. Bouffard, and Eric D. Green

An intermediate grade of finished genomic sequence suitable for comparative analyses
Genome Res. 2004 14: 2235-2244. Published in Advance October 12, 2004, 10.1101/gr.2648404 [Abstract] [Full Text]  

Alkes L. Price, Eleazar Eskin, and Pavel A. Pevzner

Whole-genome analysis of Alu repeat elements reveals complex evolutionary history
Genome Res. 2004 14: 2245-2252. [Abstract] [Full Text] [Supplemental Research Data]  

Laurence Lavie, Esther Maldener, Brook Brouha, Eckart U. Meese, and Jens Mayer

The human L1 promoter: Variable transcription initiation sites and a major impact of upstream flanking sequence on promoter activity
Genome Res. 2004 14: 2253-2260. [Abstract] [Full Text] [Supplemental Research Data]  

David Ribet, Marie Dewannieux, and Thierry Heidmann

An active murine transposon family pair: Retrotransposition of "master" MusD copies and ETn trans-mobilization
Genome Res. 2004 14: 2261-2267. Published in Advance October 12, 2004, 10.1101/gr.2924904 [Abstract] [Full Text] [Supplemental Research Data]  

Zackary I. Johnson and Sallie W. Chisholm

Properties of overlapping genes are conserved across microbial genomes
Genome Res. 2004 14: 2268-2272. [Abstract] [Full Text] [Supplemental Research Data]  

Emmanuelle Lerat and Howard Ochman

-: Exploring the outer limits of bacterial pseudogenes
Genome Res. 2004 14: 2273-2278. Published in Advance October 12, 2004, 10.1101/gr.2925604 [Abstract] [Full Text] [Supplemental Research Data]  

Eduardo P.C. Rocha

Codon usage bias from tRNA's point of view: Redundancy, specialization, and efficient decoding for translation optimization
Genome Res. 2004 14: 2279-2286. Published in Advance October 12, 2004, 10.1101/gr.2896904 [Abstract] [Full Text] [Supplemental Research Data][Correction]  

Sergei Degtyarev, Tatiana Boykova, Andrei Grishanin, Stepan Belyakin, Nikolai Rubtsov, Tatiana Karamysheva, Grigory Makarevich, Alexei Akifyev, and Igor Zhimulev

The molecular structure of the DNA fragments eliminated during chromatin diminution in Cyclops kolensis
Genome Res. 2004 14: 2287-2294. [Abstract] [Full Text] [Supplemental Research Data]  

Catherine Ong, Chia Huey Ooi, Dongling Wang, Hweeling Chong, Kim Chong Ng, Fiona Rodrigues, May Ann Lee, and Patrick Tan

Patterns of large-scale genomic variation in virulent and avirulent Burkholderia species
Genome Res. 2004 14: 2295-2307. [Abstract] [Full Text] [Supplemental Research Data]  

Karine G. Le Roch, Jeffrey R. Johnson, Laurence Florens, Yingyao Zhou, Andrey Santrosyan, Munira Grainger, S. Frank Yan, Kim C. Williamson, Anthony A. Holder, Daniel J. Carucci, John R. Yates, III, and Elizabeth A. Winzeler

Global analysis of transcript and protein levels across the Plasmodium falciparum life cycle
Genome Res. 2004 14: 2308-2318. [Abstract] [Full Text] [Supplemental Research Data]  

Marion Becker, Niall Aitcheson, Elaine Byles, Bill Wickstead, Edward Louis, and Gloria Rudenko

Isolation of the repertoire of VSG expression site containing telomeres of Trypanosoma brucei 427 using transformation-associated recombination in yeast
Genome Res. 2004 14: 2319-2329. [Abstract] [Full Text]  

METHODS:

Aaron E. Tenney, Randall H. Brown, Charles Vaske, Jennifer K. Lodge, Tamara L. Doering, and Michael R. Brent

Gene prediction and verification in a compact genome with numerous small introns
Genome Res. 2004 14: 2330-2335. Published in Advance October 12, 2004, 10.1101/gr.2816704 [Abstract] [Full Text]  

Benjamin Raphael, Degui Zhi, Haixu Tang, and Pavel Pevzner

A novel method for multiple alignment of sequences with repeated and shuffled elements
Genome Res. 2004 14: 2336-2346. [Abstract] [Full Text] [Supplemental Research Data]  

Kenneth Kuhn, Shawn C. Baker, Eugene Chudin, Minh-Ha Lieu, Steffen Oeser, Holly Bennett, Philippe Rigault, David Barker, Timothy K. McDaniel, and Mark S. Chee

A novel, high-performance random array platform for quantitative gene expression profiling
Genome Res. 2004 14: 2347-2356. [Abstract] [Full Text]  

Gang Wang, Elizabeth Maher, Cameron Brennan, Lynda Chin, Christopher Leo, Manjit Kaur, Penny Zhu, Martha Rook, Jia Liu Wolfe, and G. Mike Makrigiorgos

DNA amplification method tolerant to sample degradation
Genome Res. 2004 14: 2357-2366. [Abstract] [Full Text]  

RESOURCES:

Priti Pharkya, Anthony P. Burgard, and Costas D. Maranas

OptStrain: A computational framework for redesign of microbial production systems
Genome Res. 2004 14: 2367-2376. [Abstract] [Full Text] [Supplemental Research Data]  

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