Searching journal content for D. Benjamin Gordon in author.

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  1. Method: Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation
    • Ian T. Fiddes,
    • Joel Armstrong,
    • Mark Diekhans,
    • Stefanie Nachtweide,
    • Zev N. Kronenberg,
    • Jason G. Underwood,
    • David Gordon,
    • Dent Earl,
    • Thomas Keane,
    • Evan E. Eichler,
    • David Haussler,
    • Mario Stanke,
    • and Benedict Paten
    Genome Res. July 2018 28: 1029-1038; Published in Advance June 8, 2018, doi:10.1101/gr.233460.117
  2. Corrigendum: Corrigendum: Discovery and genotyping of structural variation from long-read haploid genome sequence data
    • John Huddleston,
    • Mark J.P. Chaisson,
    • Karyn Meltz Steinberg,
    • Wes Warren,
    • Kendra Hoekzema,
    • David Gordon,
    • Tina A. Graves-Lindsay,
    • Katherine M. Munson,
    • Zev N. Kronenberg,
    • Laura Vives,
    • Paul Peluso,
    • Matthew Boitano,
    • Chen-Shin Chin,
    • Jonas Korlach,
    • Richard K. Wilson,
    • and Evan E. Eichler
    Genome Res. January 2018 28: 144; doi:10.1101/gr.233007.117
    OPEN ACCESS ARTICLE
  3. Research: Discovery and genotyping of structural variation from long-read haploid genome sequence data
    • John Huddleston,
    • Mark J.P. Chaisson,
    • Karyn Meltz Steinberg,
    • Wes Warren,
    • Kendra Hoekzema,
    • David Gordon,
    • Tina A. Graves-Lindsay,
    • Katherine M. Munson,
    • Zev N. Kronenberg,
    • Laura Vives,
    • Paul Peluso,
    • Matthew Boitano,
    • Chen-Shin Chin,
    • Jonas Korlach,
    • Richard K. Wilson,
    • and Evan E. Eichler
    Genome Res. May 2017 27: 677-685; Published in Advance November 28, 2016, doi:10.1101/gr.214007.116
  4. Resource: The pig X and Y Chromosomes: structure, sequence, and evolution
    • Benjamin M. Skinner,
    • Carole A. Sargent,
    • Carol Churcher,
    • Toby Hunt,
    • Javier Herrero,
    • Jane E. Loveland,
    • Matt Dunn,
    • Sandra Louzada,
    • Beiyuan Fu,
    • William Chow,
    • James Gilbert,
    • Siobhan Austin-Guest,
    • Kathryn Beal,
    • Denise Carvalho-Silva,
    • William Cheng,
    • Daria Gordon,
    • Darren Grafham,
    • Matt Hardy,
    • Jo Harley,
    • Heidi Hauser,
    • Philip Howden,
    • Kerstin Howe,
    • Kim Lachani,
    • Peter J.I. Ellis,
    • Daniel Kelly,
    • Giselle Kerry,
    • James Kerwin,
    • Bee Ling Ng,
    • Glen Threadgold,
    • Thomas Wileman,
    • Jonathan M.D. Wood,
    • Fengtang Yang,
    • Jen Harrow,
    • Nabeel A. Affara,
    • and Chris Tyler-Smith
    Genome Res. January 2016 26: 130-139; Published in Advance November 11, 2015, doi:10.1101/gr.188839.114
    OPEN ACCESS ARTICLE
  5. LETTER: Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
    • David S. Johnson,
    • Wei Li,
    • D. Benjamin Gordon,
    • Arindam Bhattacharjee,
    • Bo Curry,
    • Jayati Ghosh,
    • Leonardo Brizuela,
    • Jason S. Carroll,
    • Myles Brown,
    • Paul Flicek,
    • Christoph M. Koch,
    • Ian Dunham,
    • Mark Bieda,
    • Xiaoqin Xu,
    • Peggy J. Farnham,
    • Philipp Kapranov,
    • David A. Nix,
    • Thomas R. Gingeras,
    • Xinmin Zhang,
    • Heather Holster,
    • Nan Jiang,
    • Roland D. Green,
    • Jun S. Song,
    • Scott A. McCuine,
    • Elizabeth Anton,
    • Loan Nguyen,
    • Nathan D. Trinklein,
    • Zhen Ye,
    • Keith Ching,
    • David Hawkins,
    • Bing Ren,
    • Peter C. Scacheri,
    • Joel Rozowsky,
    • Alexander Karpikov,
    • Ghia Euskirchen,
    • Sherman Weissman,
    • Mark Gerstein,
    • Michael Snyder,
    • Annie Yang,
    • Zarmik Moqtaderi,
    • Heather Hirsch,
    • Hennady P. Shulha,
    • Yutao Fu,
    • Zhiping Weng,
    • Kevin Struhl,
    • Richard M. Myers,
    • Jason D. Lieb,
    • and X. Shirley Liu
    Genome Res. March 2008 18: 393-403; Published in Advance February 7, 2008, doi:10.1101/gr.7080508
  6. LETTER: Characterization and predictive discovery of evolutionarily conserved mammalian alternative promoters
    • Daehyun Baek,
    • Colleen Davis,
    • Brent Ewing,
    • David Gordon,
    • and Phil Green
    Genome Res. February 2007 17: 145-155; Published in Advance January 8, 2007, doi:10.1101/gr.5872707
    OPEN ACCESS ARTICLE
  7. RESOURCE: Assembly, Annotation, and Integration of UNIGENE Clusters into the Human Genome Draft
    • Degen Zhuo,
    • Wei D. Zhao,
    • Fred A. Wright,
    • Hee-Yung Yang,
    • Jian-Ping Wang,
    • Russell Sears,
    • Troy Baer,
    • Do-Hun Kwon,
    • David Gordon,
    • Solomon Gibbs,
    • Dean Dai,
    • Qing Yang,
    • Joe Spitzner,
    • Ralf Krahe,
    • Don Stredney,
    • Al Stutz,
    • and Bo Yuan
    Genome Res. May 1, 2001 11: 904-918; Published in Advance April 11, 2001, doi:10.1101/gr.164501
  8. METHODS: Automated Finishing with Autofinish
    • David Gordon,
    • Cindy Desmarais,
    • and Phil Green
    Genome Res. April 1, 2001 11: 614-625; doi:10.1101/gr.171401
  9. RESEARCH: Consed: A Graphical Tool for Sequence Finishing
    • David Gordon,
    • Chris Abajian,
    • and Phil Green
    Genome Res. March 1, 1998 8: 195-202; doi:10.1101/gr.8.3.195
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