Searching journal content for Damian Keefe in author.

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  1. Resource: Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity
    • Lingyun Song,
    • Zhancheng Zhang,
    • Linda L. Grasfeder,
    • Alan P. Boyle,
    • Paul G. Giresi,
    • Bum-Kyu Lee,
    • Nathan C. Sheffield,
    • Stefan Gräf,
    • Mikael Huss,
    • Damian Keefe,
    • Zheng Liu,
    • Darin London,
    • Ryan M. McDaniell,
    • Yoichiro Shibata,
    • Kimberly A. Showers,
    • Jeremy M. Simon,
    • Teresa Vales,
    • Tianyuan Wang,
    • Deborah Winter,
    • Zhuzhu Zhang,
    • Neil D. Clarke,
    • Ewan Birney,
    • Vishwanath R. Iyer,
    • Gregory E. Crawford,
    • Jason D. Lieb,
    • and Terrence S. Furey
    Genome Res. October 2011 21: 1757-1767; Published in Advance July 12, 2011, doi:10.1101/gr.121541.111
    OPEN ACCESS ARTICLE
  2. Method: High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
    • Alan P. Boyle,
    • Lingyun Song,
    • Bum-Kyu Lee,
    • Darin London,
    • Damian Keefe,
    • Ewan Birney,
    • Vishwanath R. Iyer,
    • Gregory E. Crawford,
    • and Terrence S. Furey
    Genome Res. March 2011 21: 456-464; Published in Advance November 24, 2010, doi:10.1101/gr.112656.110
    OPEN ACCESS ARTICLE
  3. ARTICLE: Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
    • Elliott H. Margulies,
    • Gregory M. Cooper,
    • George Asimenos,
    • Daryl J. Thomas,
    • Colin N. Dewey,
    • Adam Siepel,
    • Ewan Birney,
    • Damian Keefe,
    • Ariel S. Schwartz,
    • Minmei Hou,
    • James Taylor,
    • Sergey Nikolaev,
    • Juan I. Montoya-Burgos,
    • Ari Löytynoja,
    • Simon Whelan,
    • Fabio Pardi,
    • Tim Massingham,
    • James B. Brown,
    • Peter Bickel,
    • Ian Holmes,
    • James C. Mullikin,
    • Abel Ureta-Vidal,
    • Benedict Paten,
    • Eric A. Stone,
    • Kate R. Rosenbloom,
    • W. James Kent,
    • Gerard G. Bouffard,
    • Xiaobin Guan,
    • Nancy F. Hansen,
    • Jacquelyn R. Idol,
    • Valerie V.B. Maduro,
    • Baishali Maskeri,
    • Jennifer C. McDowell,
    • Morgan Park,
    • Pamela J. Thomas,
    • Alice C. Young,
    • Robert W. Blakesley,
    • Donna M. Muzny,
    • Erica Sodergren,
    • David A. Wheeler,
    • Kim C. Worley,
    • Huaiyang Jiang,
    • George M. Weinstock,
    • Richard A. Gibbs,
    • Tina Graves,
    • Robert Fulton,
    • Elaine R. Mardis,
    • Richard K. Wilson,
    • Michele Clamp,
    • James Cuff,
    • Sante Gnerre,
    • David B. Jaffe,
    • Jean L. Chang,
    • Kerstin Lindblad-Toh,
    • Eric S. Lander,
    • Angie Hinrichs,
    • Heather Trumbower,
    • Hiram Clawson,
    • Ann Zweig,
    • Robert M. Kuhn,
    • Galt Barber,
    • Rachel Harte,
    • Donna Karolchik,
    • Matthew A. Field,
    • Richard A. Moore,
    • Carrie A. Matthewson,
    • Jacqueline E. Schein,
    • Marco A. Marra,
    • Stylianos E. Antonarakis,
    • Serafim Batzoglou,
    • Nick Goldman,
    • Ross Hardison,
    • David Haussler,
    • Webb Miller,
    • Lior Pachter,
    • Eric D. Green,
    • and Arend Sidow
    Genome Res. June 2007 17: 760-774; doi:10.1101/gr.6034307
    OPEN ACCESS ARTICLE
  4. ENSEMBL Special: An Overview of Ensembl
    • Ewan Birney,
    • T. Daniel Andrews,
    • Paul Bevan,
    • Mario Caccamo,
    • Yuan Chen,
    • Laura Clarke,
    • Guy Coates,
    • James Cuff,
    • Val Curwen,
    • Tim Cutts,
    • Thomas Down,
    • Eduardo Eyras,
    • Xose M. Fernandez-Suarez,
    • Paul Gane,
    • Brian Gibbins,
    • James Gilbert,
    • Martin Hammond,
    • Hans-Rudolf Hotz,
    • Vivek Iyer,
    • Kerstin Jekosch,
    • Andreas Kahari,
    • Arek Kasprzyk,
    • Damian Keefe,
    • Stephen Keenan,
    • Heikki Lehvaslaiho,
    • Graham McVicker,
    • Craig Melsopp,
    • Patrick Meidl,
    • Emmanuel Mongin,
    • Roger Pettett,
    • Simon Potter,
    • Glenn Proctor,
    • Mark Rae,
    • Steve Searle,
    • Guy Slater,
    • Damian Smedley,
    • James Smith,
    • Will Spooner,
    • Arne Stabenau,
    • James Stalker,
    • Roy Storey,
    • Abel Ureta-Vidal,
    • K. Cara Woodwark,
    • Graham Cameron,
    • Richard Durbin,
    • Anthony Cox,
    • Tim Hubbard,
    • and Michele Clamp
    Genome Res. May 2004 14: 925-928; Published in Advance April 12, 2004, doi:10.1101/gr.1860604
  5. RESOURCE: EnsMart: A Generic System for Fast and Flexible Access to Biological Data
    • Arek Kasprzyk,
    • Damian Keefe,
    • Damian Smedley,
    • Darin London,
    • William Spooner,
    • Craig Melsopp,
    • Martin Hammond,
    • Philippe Rocca-Serra,
    • Tony Cox,
    • and Ewan Birney
    Genome Res. January 2004 14: 160-169; doi:10.1101/gr.1645104
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