ARTICLES:

Gustavo Caetano-Anollés and Derek Caetano-Anollés

An Evolutionarily Structured Universe of Protein Architecture
Genome Res. 2003 13: 1563-1571. [Abstract] [Full Text] [Supplemental Research Data]  

Yousuke Nishio, Yoji Nakamura, Yutaka Kawarabayasi, Yoshihiro Usuda, Eiichiro Kimura, Shinichi Sugimoto, Kazuhiko Matsui, Akihiko Yamagishi, Hisashi Kikuchi, Kazuho Ikeo, and Takashi Gojobori

Comparative Complete Genome Sequence Analysis of the Amino Acid Replacements Responsible for the Thermostability of Corynebacterium efficiens
Genome Res. 2003 13: 1572-1579. [Abstract] [Full Text] [Supplemental Research Data]  

Neil F.W. Saunders, Torsten Thomas, Paul M.G. Curmi, John S. Mattick, Elizabeth Kuczek, Rob Slade, John Davis, Peter D. Franzmann, David Boone, Karl Rusterholtz, Robert Feldman, Chris Gates, Shellie Bench, Kevin Sowers, Kristen Kadner, Andrea Aerts, Paramvir Dehal, Chris Detter, Tijana Glavina, Susan Lucas, Paul Richardson, Frank Larimer, Loren Hauser, Miriam Land, and Ricardo Cavicchioli

Mechanisms of Thermal Adaptation Revealed From the Genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii
Genome Res. 2003 13: 1580-1588. Published in Advance June 12, 2003, 10.1101/gr.1180903 [Abstract] [Full Text]  

LETTERS:

Victor Kunin and Christos A. Ouzounis

The Balance of Driving Forces During Genome Evolution in Prokaryotes
Genome Res. 2003 13: 1589-1594. [Abstract] [Full Text] [Supplemental Research Data]  

Olivier Jaillon, Carole Dossat, Ralph Eckenberg, Karin Eiglmeier, Béatrice Segurens, Jean-Marc Aury, Charles W. Roth, Claude Scarpelli, Paul T. Brey, Jean Weissenbach, and Patrick Wincker

Assessing the Drosophila melanogaster and Anopheles gambiae Genome Annotations Using Genome-Wide Sequence Comparisons
Genome Res. 2003 13: 1595-1599. [Abstract] [Full Text]  

Max Ingman and Ulf Gyllensten

Mitochondrial Genome Variation and Evolutionary History of Australian and New Guinean Aborigines
Genome Res. 2003 13: 1600-1606. [Abstract] [Full Text]  

W. Scott Watkins, Alan R. Rogers, Christopher T. Ostler, Steve Wooding, Michael J. Bamshad, Anna-Marie E. Brassington, Marion L. Carroll, Son V. Nguyen, Jerilyn A. Walker, B.V. Ravi Prasad, P. Govinda Reddy, Pradipta K. Das, Mark A. Batzer, and Lynn B. Jorde

Genetic Variation Among World Populations: Inferences From 100 Alu Insertion Polymorphisms
Genome Res. 2003 13: 1607-1618. Published in Advance June 12, 2003, 10.1101/gr.894603 [Abstract] [Full Text] [Supplemental Research Data]  

Mazen W. Karaman, Marlys L. Houck, Leona G. Chemnick, Shailender Nagpal, Daniel Chawannakul, Dominick Sudano, Brian L. Pike, Vincent V. Ho, Oliver A. Ryder, and Joseph G. Hacia

Comparative Analysis of Gene-Expression Patterns in Human and African Great Ape Cultured Fibroblasts
Genome Res. 2003 13: 1619-1630. [Abstract] [Full Text] [Supplemental Research Data]  

Rotem Sorek and Gil Ast

Intronic Sequences Flanking Alternatively Spliced Exons Are Conserved Between Human and Mouse
Genome Res. 2003 13: 1631-1637. [Abstract] [Full Text] [Supplemental Research Data]  

Kateryna D. Makova and Wen-Hsiung Li

Divergence in the Spatial Pattern of Gene Expression Between Human Duplicate Genes
Genome Res. 2003 13: 1638-1645. [Abstract] [Full Text] [Supplemental Research Data]  

Michel de Chaldée, Marie-Claude Gaillard, Nicolas Bizat, Jean-Marie Buhler, Olivier Manzoni, Joël Bockaert, Philippe Hantraye, Emmanuel Brouillet, and Jean-Marc Elalouf

Quantitative Assessment of Transcriptome Differences Between Brain Territories
Genome Res. 2003 13: 1646-1653. [Abstract] [Full Text] [Supplemental Research Data][ ]  

Xiaosong Wang, Isabelle Le Roy, Edwige Nicodeme, Renhua Li, Richard Wagner, Christina Petros, Gary A. Churchill, Stephen Harris, Ariel Darvasi, Jorge Kirilovsky, Pierre L. Roubertoux, and Beverly Paigen

Using Advanced Intercross Lines for High-Resolution Mapping of HDL Cholesterol Quantitative Trait Loci
Genome Res. 2003 13: 1654-1664. Published in Advance June 12, 2003, 10.1101/gr.1185803 [Abstract] [Full Text] [Supplemental Research Data]  

Matthew McKevitt, Krupa Patel, David Smajs, Michael Marsh, Melanie McLoughlin, Steven J. Norris, George M. Weinstock, and Timothy Palzkill

Systematic Cloning of Treponema pallidum Open Reading Frames for Protein Expression and Antigen Discovery
Genome Res. 2003 13: 1665-1674. Published in Advance June 12, 2003, 10.1101/gr.288103 [Abstract] [Full Text] [Supplemental Research Data]  

Trudy A. Torto, Shuang Li, Allison Styer, Edgar Huitema, Antonino Testa, Neil A.R. Gow, Pieter van West, and Sophien Kamoun

EST Mining and Functional Expression Assays Identify Extracellular Effector Proteins From the Plant Pathogen Phytophthora
Genome Res. 2003 13: 1675-1685. [Abstract] [Full Text] [Supplemental Research Data]  

Laurence Bouneau, Cécile Fischer, Catherine Ozouf-Costaz, Alexander Froschauer, Olivier Jaillon, Jean-Pierre Coutanceau, Cornelia Körting, Jean Weissenbach, Alain Bernot, and Jean-Nicolas Volff

An Active Non-LTR Retrotransposon With Tandem Structure in the Compact Genome of the Pufferfish Tetraodon nigroviridis
Genome Res. 2003 13: 1686-1695. Published in Advance June 12, 2003, 10.1101/gr.726003 [Abstract] [Full Text]  

Ryuichi Ono, Hirosuke Shiura, Hiroyuki Aburatani, Takashi Kohda, Tomoko Kaneko-Ishino, and Fumitoshi Ishino

Identification of a Large Novel Imprinted Gene Cluster on Mouse Proximal Chromosome 6
Genome Res. 2003 13: 1696-1705. [Abstract] [Full Text] [Supplemental Research Data]  

METHODS:

Philip M. Kim and Bruce Tidor

Subsystem Identification Through Dimensionality Reduction of Large-Scale Gene Expression Data
Genome Res. 2003 13: 1706-1718. [Abstract] [Full Text] [Supplemental Research Data]  

Shreeram Akilesh, Daniel J. Shaffer, and Derry Roopenian

Customized Molecular Phenotyping by Quantitative Gene Expression and Pattern Recognition Analysis
Genome Res. 2003 13: 1719-1727. [Abstract] [Full Text] [Supplemental Research Data]  

Nobuaki Toyoda, Shigenori Nagai, Yuya Terashima, Kazushi Motomura, Makoto Haino, Shin-ichi Hashimoto, Hajime Takizawa, and Kouji Matsushima

Analysis of mRNA With Microsomal Fractionation Using a SAGE-Based DNA Microarray System Facilitates Identification of the Genes Encoding Secretory Proteins
Genome Res. 2003 13: 1728-1736. Published in Advance June 12, 2003, 10.1101/gr.709603 [Abstract] [Full Text]  

Huseyin Sumer, Jeffrey M. Craig, Mandy Sibson, and K.H. Andy Choo

A Rapid Method of Genomic Array Analysis of Scaffold/Matrix Attachment Regions (S/MARs) Identifies a 2.5-Mb Region of Enhanced Scaffold/Matrix Attachment at a Human Neocentromere
Genome Res. 2003 13: 1737-1743. [Abstract] [Full Text] [Supplemental Research Data]  

Safia Thaminy, Daniel Auerbach, Anthony Arnoldo, and Igor Stagljar

Identification of Novel ErbB3-Interacting Factors Using the Split-Ubiquitin Membrane Yeast Two-Hybrid System
Genome Res. 2003 13: 1744-1753. [Abstract] [Full Text] [Supplemental Research Data]  

Qinghong Yang, Alla Lishanski, Wendy Yang, Sandra Hatcher, Henrietta Seet, and Jeffrey P. Gregg

Allele-Specific Holliday Junction Formation: A New Mechanism of Allelic Discrimination for SNP Scoring
Genome Res. 2003 13: 1754-1764. [Abstract] [Full Text]  

Shirin Khambata-Ford, Yueyi Liu, Christopher Gleason, Mark Dickson, Russ B. Altman, Serafim Batzoglou, and Richard M. Myers

Identification of Promoter Regions in the Human Genome by Using a Retroviral Plasmid Library-Based Functional Reporter Gene Assay
Genome Res. 2003 13: 1765-1774. Published in Advance June 12, 2003, 10.1101/gr.529803 [Abstract] [Full Text] [Supplemental Research Data]  

Andrea Barczak, Madeleine Willkom Rodriguez, Kristina Hanspers, Laura L. Koth, Yu Chuan Tai, Benjamin M. Bolstad, Terence P. Speed, and David J. Erle

Spotted Long Oligonucleotide Arrays for Human Gene Expression Analysis
Genome Res. 2003 13: 1775-1785. Published in Advance June 12, 2003, 10.1101/gr.1048803 [Abstract] [Full Text]  

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