Table of Contents

January 2010; 20 (1)

Letter

  • Ecological adaptation determines functional mammalian olfactory subgenomes

    • Sara Hayden,
    • Michaël Bekaert,
    • Tess A. Crider,
    • Stefano Mariani,
    • William J. Murphy,
    • and Emma C. Teeling
    Genome Res. January 2010 20: 1-9; Published in Advance December 1, 2009, doi:10.1101/gr.099416.109

  • Extreme variability among mammalian V1R gene families

    • Janet M. Young,
    • Hillary F. Massa,
    • Li Hsu,
    • and Barbara J. Trask
    Genome Res. January 2010 20: 10-18; Published in Advance December 1, 2009, doi:10.1101/gr.098913.109

  • A novel active endogenous retrovirus family contributes to genome variability in rat inbred strains

    • Yongming Wang,
    • František Liška,
    • Claudia Gosele,
    • Lucie Šedová,
    • Vladimír Křen,
    • Drahomíra Křenová,
    • Zoltán Ivics,
    • Norbert Hubner,
    • and Zsuzsanna Izsvák
    Genome Res. January 2010 20: 19-27; Published in Advance November 3, 2009, doi:10.1101/gr.100073.109

  • An integrative genomic analysis identifies Bhmt2 as a diet-dependent genetic factor protecting against acetaminophen-induced liver toxicity

    • Hong-Hsing Liu,
    • Peng Lu,
    • Yingying Guo,
    • Erin Farrell,
    • Xun Zhang,
    • Ming Zheng,
    • Betty Bosano,
    • Zhaomei Zhang,
    • John Allard,
    • Guochun Liao,
    • Siyu Fu,
    • Jinzhi Chen,
    • Kimberly Dolim,
    • Ayako Kuroda,
    • Jonathan Usuka,
    • Janet Cheng,
    • William Tao,
    • Kevin Welch,
    • Yanzhou Liu,
    • Joseph Pease,
    • Steve A. de Keczer,
    • Mohammad Masjedizadeh,
    • Jing-Shan Hu,
    • Paul Weller,
    • Tim Garrow,
    • and Gary Peltz
    Genome Res. January 2010 20: 28-35; Published in Advance November 18, 2009, doi:10.1101/gr.097212.109

  • Genome-wide mapping of SMAD target genes reveals the role of BMP signaling in embryonic stem cell fate determination

    • Teng Fei,
    • Kai Xia,
    • Zhongwei Li,
    • Bing Zhou,
    • Shanshan Zhu,
    • Hua Chen,
    • Jianping Zhang,
    • Zhang Chen,
    • Huasheng Xiao,
    • Jing-Dong J. Han,
    • and Ye-Guang Chen
    Genome Res. January 2010 20: 36-44; Published in Advance November 19, 2009, doi:10.1101/gr.092114.109

  • Genome-wide mapping of alternative splicing in Arabidopsis thaliana

    • Sergei A. Filichkin,
    • Henry D. Priest,
    • Scott A. Givan,
    • Rongkun Shen,
    • Douglas W. Bryant,
    • Samuel E. Fox,
    • Weng-Keen Wong,
    • and Todd C. Mockler
    Genome Res. January 2010 20: 45-58; Published in Advance October 26, 2009, doi:10.1101/gr.093302.109

  • A novel strategy of transcription regulation by intragenic nucleosome ordering

    • Cédric Vaillant,
    • Leonor Palmeira,
    • Guillaume Chevereau,
    • Benjamin Audit,
    • Yves d'Aubenton-Carafa,
    • Claude Thermes,
    • and Alain Arneodo
    Genome Res. January 2010 20: 59-67; Published in Advance October 26, 2009, doi:10.1101/gr.096644.109

Methods

  • Inferring tumor progression from genomic heterogeneity

    • Nicholas Navin,
    • Alexander Krasnitz,
    • Linda Rodgers,
    • Kerry Cook,
    • Jennifer Meth,
    • Jude Kendall,
    • Michael Riggs,
    • Yvonne Eberling,
    • Jennifer Troge,
    • Vladimir Grubor,
    • Dan Levy,
    • Pär Lundin,
    • Susanne Månér,
    • Anders Zetterberg,
    • James Hicks,
    • and Michael Wigler
    Genome Res. January 2010 20: 68-80; Published in Advance November 10, 2009, doi:10.1101/gr.099622.109
    OPEN ACCESS ARTICLE

  • Targeted chromosomal deletions in human cells using zinc finger nucleases

    • Hyung Joo Lee,
    • Eunji Kim,
    • and Jin-Soo Kim
    Genome Res. January 2010 20: 81-89; Published in Advance December 1, 2009, doi:10.1101/gr.099747.109

  • High-resolution nucleosome mapping reveals transcription-dependent promoter packaging

    • Assaf Weiner,
    • Amanda Hughes,
    • Moran Yassour,
    • Oliver J. Rando,
    • and Nir Friedman
    Genome Res. January 2010 20: 90-100; Published in Advance October 21, 2009, doi:10.1101/gr.098509.109
    OPEN ACCESS ARTICLE

  • Estimating population genetic parameters and comparing model goodness-of-fit using DNA sequences with error

    • Xiaoming Liu,
    • Yun-Xin Fu,
    • Taylor J. Maxwell,
    • and Eric Boerwinkle
    Genome Res. January 2010 20: 101-109; Published in Advance December 1, 2009, doi:10.1101/gr.097543.109
    OPEN ACCESS ARTICLE

  • Detection of nonneutral substitution rates on mammalian phylogenies

    • Katherine S. Pollard,
    • Melissa J. Hubisz,
    • Kate R. Rosenbloom,
    • and Adam Siepel
    Genome Res. January 2010 20: 110-121; Published in Advance October 26, 2009, doi:10.1101/gr.097857.109
    OPEN ACCESS ARTICLE

  • Reconstructing ancestral gene content by coevolution

    • Tamir Tuller,
    • Hadas Birin,
    • Uri Gophna,
    • Martin Kupiec,
    • and Eytan Ruppin
    Genome Res. January 2010 20: 122-132; Published in Advance November 30, 2009, doi:10.1101/gr.096115.109

Resource

  • A single-base resolution map of an archaeal transcriptome

    • Omri Wurtzel,
    • Rajat Sapra,
    • Feng Chen,
    • Yiwen Zhu,
    • Blake A. Simmons,
    • and Rotem Sorek
    Genome Res. January 2010 20: 133-141; Published in Advance November 2, 2009, doi:10.1101/gr.100396.109

  • ProPhylER: A curated online resource for protein function and structure based on evolutionary constraint analyses

    • Jonathan Binkley,
    • Kalpana Karra,
    • Andrew Kirby,
    • Midori Hosobuchi,
    • Eric A. Stone,
    • and Arend Sidow
    Genome Res. January 2010 20: 142-154; Published in Advance October 21, 2009, doi:10.1101/gr.097121.109
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This Issue

January 2010; 20 (1)
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