Table of Contents

January 2002; 12 (1)

COMMENTARY

  • Testing the Parsimony Test of Genome Duplications: A Counterexample

    • Xun Gu and
    • Wei Huang
    Genome Res. January 1, 2002 12: 1-2; doi:10.1101/gr.214402

REPORT

  • Generation and Comparative Analysis of ∼3.3 Mb of Mouse Genomic Sequence Orthologous to the Region of Human Chromosome 7q11.23 Implicated in Williams Syndrome

    • Udaya DeSilva,
    • Laura Elnitski,
    • Jacquelyn R. Idol,
    • Johannah L. Doyle,
    • Weiniu Gan,
    • James W. Thomas,
    • Scott Schwartz,
    • Nicole L. Dietrich,
    • Stephen M. Beckstrom-Sternberg,
    • Jennifer C. McDowell,
    • Robert W. Blakesley,
    • Gerard G. Bouffard,
    • Pamela J. Thomas,
    • Jeffrey W. Touchman,
    • Webb Miller,
    • and Eric D. Green
    Genome Res. January 1, 2002 12: 3-15; doi:10.1101/gr.214802

ARTICLE

  • Genomes in Flux: The Evolution of Archaeal and Proteobacterial Gene Content

    • Berend Snel,
    • Peer Bork,
    • and Martijn A. Huynen
    Genome Res. January 1, 2002 12: 17-25; Published in Advance December 14, 2001, doi:10.1101/gr.176501

LETTERS

  • Genome-Scale Evolution: Reconstructing Gene Orders in the Ancestral Species

    • Guillaume Bourque and
    • Pavel A. Pevzner
    Genome Res. January 1, 2002 12: 26-36

  • Relating Whole-Genome Expression Data with Protein-Protein Interactions

    • Ronald Jansen,
    • Dov Greenbaum,
    • and Mark Gerstein
    Genome Res. January 1, 2002 12: 37-46; doi:10.1101/gr.205602

  • Systematic Identification of Novel Protein Domain Families Associated with Nuclear Functions

    • Tobias Doerks,
    • Richard R. Copley,
    • Jörg Schultz,
    • Chris P. Ponting,
    • and Peer Bork
    Genome Res. January 1, 2002 12: 47-56; doi:10.1101/gr.203201

  • A Comparative Genomic Analysis of Two Distant Diptera, the Fruit Fly, Drosophila melanogaster, and the Malaria Mosquito, Anopheles gambiae

    • Viacheslav N. Bolshakov,
    • Pantelis Topalis,
    • Claudia Blass,
    • Elena Kokoza,
    • Alessandra della Torre,
    • Fotis C. Kafatos,
    • and Christos Louis
    Genome Res. January 1, 2002 12: 57-66; doi:10.1101/gr.196101

  • Human Paralogs of KIAA0187 Were Created through Independent Pericentromeric-Directed and Chromosome-Specific Duplication Mechanisms

    • Moira Crosier,
    • Luigi Viggiano,
    • Jane Guy,
    • Doriana Misceo,
    • Robert Stones,
    • Wenbin Wei,
    • Tom Hearn,
    • Mario Ventura,
    • Nicoletta Archidiacono,
    • Mariano Rocchi,
    • and Michael S. Jackson
    Genome Res. January 1, 2002 12: 67-80; doi:10.1101/gr.213702

  • Genomic Analysis of the Olfactory Receptor Region of the Mouse and Human T-Cell Receptor α/δ Loci

    • Robert P. Lane,
    • Jared C. Roach,
    • Inyoul Y. Lee,
    • Cecilie Boysen,
    • Arian Smit,
    • Barbara J. Trask,
    • and Leroy Hood
    Genome Res. January 1, 2002 12: 81-87; doi:10.1101/gr.197901

  • Identification of the Modifier of Min 2 (Mom2) Locus, a New Mutation That Influences Apc-Induced Intestinal Neoplasia

    • Karen A. Silverman,
    • Revati Koratkar,
    • Linda D. Siracusa,
    • and Arthur M. Buchberg
    Genome Res. January 1, 2002 12: 88-97; doi:10.1101/gr.206002

  • Changes in Gene Expression Profiles in Developing B Cells of Murine Bone Marrow

    • Reinhard Hoffmann,
    • Thomas Seidl,
    • Martin Neeb,
    • Antonius Rolink,
    • and Fritz Melchers
    Genome Res. January 1, 2002 12: 98-111; doi:10.1101/gr.201501

  • Expression Profiles of 290 ESTs Mapped to Chromosome 3 in Human Epithelial Ovarian Cancer Cell Lines Using DNA Expression Oligonucleotide Microarrays

    • Emily N. Manderson,
    • Anne-Marie Mes-Masson,
    • Jaroslav Novak,
    • Peter D. Lee,
    • Diane Provencher,
    • Thomas J. Hudson,
    • and Patricia N. Tonin
    Genome Res. January 1, 2002 12: 112-121; doi:10.1101/gr.174202

  • Athila4 of Arabidopsis and Calypso of Soybean Define a Lineage of Endogenous Plant Retroviruses

    • David A. Wright and
    • Daniel F. Voytas
    Genome Res. January 1, 2002 12: 122-131; Published in Advance December 14, 2001, doi:10.1101/gr.196001

  • Analysis of the 5S RNA Pool in Arabidopsis thaliana: RNAs Are Heterogeneous and Only Two of the Genomic 5S Loci Produce Mature 5S RNA

    • Catherine Cloix,
    • Sylvie Tutois,
    • Yasushi Yukawa,
    • Olivier Mathieu,
    • Claudine Cuvillier,
    • Marie-Claude Espagnol,
    • Georges Picard,
    • and Sylvette Tourmente
    Genome Res. January 1, 2002 12: 132-144; Published in Advance December 14, 2001, doi:10.1101/gr.181301

METHODS

  • Gene Expression Analysis with Universal n-mer Arrays

    • R. Michael van Dam and
    • Stephen R. Quake
    Genome Res. January 1, 2002 12: 145-152; doi:10.1101/gr.198901

  • Enzymatic Regional Methylation Assay: A Novel Method to Quantify Regional CpG Methylation Density

    • Oliver Galm,
    • Michael R. Rountree,
    • Kurtis E. Bachman,
    • Kam-Wing Jair,
    • Stephen B. Baylin,
    • and James G. Herman
    Genome Res. January 1, 2002 12: 153-157; Published in Advance December 14, 2001, doi:10.1101/gr.202501

  • Methylation-Specific Oligonucleotide Microarray: A New Potential for High-Throughput Methylation Analysis

    • Raad S. Gitan,
    • Huidong Shi,
    • Chuan-Mu Chen,
    • Pearlly S. Yan,
    • and Tim Hui-Ming Huang
    Genome Res. January 1, 2002 12: 158-164; Published in Advance December 14, 2001, doi:10.1101/gr.202801

  • Finding Genes in the C2C12 Osteogenic Pathway by k-Nearest-Neighbor Classification of Expression Data

    • Joachim Theilhaber,
    • Timothy Connolly,
    • Sergio Roman-Roman,
    • Steven Bushnell,
    • Amanda Jackson,
    • Kathy Call,
    • Teresa Garcia,
    • and Roland Baron
    Genome Res. January 1, 2002 12: 165-176; doi:10.1101/gr.182601

  • ARACHNE: A Whole-Genome Shotgun Assembler

    • Serafim Batzoglou,
    • David B. Jaffe,
    • Ken Stanley,
    • Jonathan Butler,
    • Sante Gnerre,
    • Evan Mauceli,
    • Bonnie Berger,
    • Jill P. Mesirov,
    • and Eric S. Lander
    Genome Res. January 1, 2002 12: 177-189; doi:10.1101/gr.208902

  • Linker-Mediated Recombinational Subcloning of Large DNA Fragments Using Yeast

    • Christopher K. Raymond,
    • Elizabeth H. Sims,
    • and Maynard V. Olson
    Genome Res. January 1, 2002 12: 190-197; doi:10.1101/gr.205201

  • The K A/K S Ratio Test for Assessing the Protein-Coding Potential of Genomic Regions: An Empirical and Simulation Study

    • Anton Nekrutenko,
    • Kateryna D. Makova,
    • and Wen-Hsiung Li
    Genome Res. January 1, 2002 12: 198-202; Published in Advance December 14, 2001, doi:10.1101/gr.200901

  • Associating Genes with Gene Ontology Codes Using a Maximum Entropy Analysis of Biomedical Literature

    • Soumya Raychaudhuri,
    • Jeffrey T. Chang,
    • Patrick D. Sutphin,
    • and Russ B. Altman
    Genome Res. January 1, 2002 12: 203-214; doi:10.1101/gr.199701
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This Issue

January 2002; 12 (1)
Cover
  1. COMMENTARY
  2. REPORT
  3. ARTICLE
  4. LETTERS
  5. METHODS

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