Table of Contents

December 2004; 14 (12)

ARTICLES

  • A survey of RNA editing in human brain

    • Matthew Blow,
    • P. Andrew Futreal,
    • Richard Wooster,
    • and Michael R. Stratton
    Genome Res. December 2004 14: 2379-2387; Published in Advance November 15, 2004, doi:10.1101/gr.2951204

  • Extensive and breed-specific linkage disequilibrium in Canis familiaris

    • Nathan B. Sutter,
    • Michael A. Eberle,
    • Heidi G. Parker,
    • Barbara J. Pullar,
    • Ewen F. Kirkness,
    • Leonid Kruglyak,
    • and Elaine A. Ostrander
    Genome Res. December 2004 14: 2388-2396; Published in Advance November 15, 2004, doi:10.1101/gr.3147604

  • Coelacanth genome sequence reveals the evolutionary history of vertebrate genes

    • James P. Noonan,
    • Jane Grimwood,
    • Joshua Danke,
    • Jeremy Schmutz,
    • Mark Dickson,
    • Chris T. Amemiya,
    • and Richard M. Myers
    Genome Res. December 2004 14: 2397-2405; Published in Advance November 15, 2004, doi:10.1101/gr.2972804

LETTERS

  • Intraspecies sequence comparisons for annotating genomes

    • Dario Boffelli,
    • Claire V. Weer,
    • Li Weng,
    • Keith D. Lewis,
    • Malak I. Shoukry,
    • Lior Pachter,
    • David N. Keys,
    • and Edward M. Rubin
    Genome Res. December 2004 14: 2406-2411; Published in Advance November 15, 2004, doi:10.1101/gr.3199704

  • Reconstructing large regions of an ancestral mammalian genome in silico

    • Mathieu Blanchette,
    • Eric D. Green,
    • Webb Miller,
    • and David Haussler
    Genome Res. December 2004 14: 2412-2423; doi:10.1101/gr.2800104

  • The mouse genome: Experimental examination of gene predictions and transcriptional start sites

    • Sujit Dike,
    • Vivekanand S. Balija,
    • Lidia U. Nascimento,
    • Zhenyu Xuan,
    • Jacqueline Ou,
    • Theresa Zutavern,
    • Lance E. Palmer,
    • Greg Hannon,
    • Michael Q. Zhang,
    • and W. Richard McCombie
    Genome Res. December 2004 14: 2424-2429; doi:10.1101/gr.3158304

  • Long-range comparison of human and mouse Sprr loci to identify conserved noncoding sequences involved in coordinate regulation

    • Natalia Martin,
    • Satyakam Patel,
    • and Julia A. Segre
    Genome Res. December 2004 14: 2430-2438; doi:10.1101/gr.2709404

  • Contribution of Asian mouse subspecies Mus musculus molossinus to genomic constitution of strain C57BL/6J, as defined by BAC-end sequence–SNP analysis

    • Kuniya Abe,
    • Hideki Noguchi,
    • Keiko Tagawa,
    • Misako Yuzuriha,
    • Atsushi Toyoda,
    • Toshio Kojima,
    • Kiyoshi Ezawa,
    • Naruya Saitou,
    • Masahira Hattori,
    • Yoshiyuki Sakaki,
    • Kazuo Moriwaki,
    • and Toshihiko Shiroishi
    Genome Res. December 2004 14: 2439-2447; doi:10.1101/gr.2899304

  • Noncoding regulatory sequences of Ciona exhibit strong correspondence between evolutionary constraint and functional importance

    • David S. Johnson,
    • Brad Davidson,
    • Christopher D. Brown,
    • William C. Smith,
    • and Arend Sidow
    Genome Res. December 2004 14: 2448-2456; Published in Advance November 15, 2004, doi:10.1101/gr.2964504

  • Novel transcription regulatory elements in Caenorhabditis elegans muscle genes

    • Debraj GuhaThakurta,
    • Lawrence A. Schriefer,
    • Robert H. Waterston,
    • and Gary D. Stormo
    Genome Res. December 2004 14: 2457-2468; doi:10.1101/gr.2961104

  • Computing prokaryotic gene ubiquity: Rescuing the core from extinction

    • Robert L. Charlebois and
    • W. Ford Doolittle
    Genome Res. December 2004 14: 2469-2477; doi:10.1101/gr.3024704

Methods

  • Marking of specific sequences in double-stranded DNA molecules—SNP detection and direct observation

    • Yasushi Shigemori,
    • Hirotaka Haruta,
    • Takao Okada,
    • and Michio Oishi
    Genome Res. December 2004 14: 2478-2485; doi:10.1101/gr.2789604

  • MicroRNA expression detected by oligonucleotide microarrays: System establishment and expression profiling in human tissues

    • Omer Barad,
    • Eti Meiri,
    • Amir Avniel,
    • Ranit Aharonov,
    • Adi Barzilai,
    • Isaac Bentwich,
    • Uri Einav,
    • Shlomit Gilad,
    • Patrick Hurban,
    • Yael Karov,
    • Edward K. Lobenhofer,
    • Eilon Sharon,
    • Yoel M. Shiboleth,
    • Marat Shtutman,
    • Zvi Bentwich,
    • and Paz Einat
    Genome Res. December 2004 14: 2486-2494; doi:10.1101/gr.2845604

  • High-throughput mutation detection underlying adaptive evolution of Escherichia coli-K12

    • Christiane Honisch,
    • Anu Raghunathan,
    • Charles R. Cantor,
    • Bernhard Ø. Palsson,
    • and Dirk van den Boom
    Genome Res. December 2004 14: 2495-2502; doi:10.1101/gr.2977704

RESOURCE

  • EAnnot: A genome annotation tool using experimental evidence

    • Li Ding,
    • Aniko Sabo,
    • Nicolas Berkowicz,
    • Rekha R. Meyer,
    • Yoram Shotland,
    • Mark R. Johnson,
    • Kymberlie H. Pepin,
    • Richard K. Wilson,
    • and John Spieth
    Genome Res. December 2004 14: 2503-2509; doi:10.1101/gr.3152604

ERRATA

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This Issue

December 2004; 14 (12)
Cover
  1. ARTICLES
  2. LETTERS
  3. Methods
  4. RESOURCE
  5. ERRATA

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