Searching journal content for James Taylor in author.

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  1. Resource: Interspecies regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes
    • Guanjue Xiang,
    • Xi He,
    • Belinda M. Giardine,
    • Kathryn J. Isaac,
    • Dylan J. Taylor,
    • Rajiv C. McCoy,
    • Camden Jansen,
    • Cheryl A. Keller,
    • Alexander Q. Wixom,
    • April Cockburn,
    • Amber Miller,
    • Qian Qi,
    • Yanghua He,
    • Yichao Li,
    • Jens Lichtenberg,
    • Elisabeth F. Heuston,
    • Stacie M. Anderson,
    • Jing Luan,
    • Marit W. Vermunt,
    • Feng Yue,
    • Michael E.G. Sauria,
    • Michael C. Schatz,
    • James Taylor,
    • Berthold Göttgens,
    • Jim R. Hughes,
    • Douglas R. Higgs,
    • Mitchell J. Weiss,
    • Yong Cheng,
    • Gerd A. Blobel,
    • David M. Bodine,
    • Yu Zhang,
    • Qunhua Li,
    • Shaun Mahony,
    • and Ross C. Hardison
    Genome Res. July 2024 34: 1089-1105; Published in Advance July 1, 2024, doi:10.1101/gr.277950.123
    OPEN ACCESS ARTICLE
  2. Resource: An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis
    • Guanjue Xiang,
    • Cheryl A. Keller,
    • Elisabeth Heuston,
    • Belinda M. Giardine,
    • Lin An,
    • Alexander Q. Wixom,
    • Amber Miller,
    • April Cockburn,
    • Michael E.G. Sauria,
    • Kathryn Weaver,
    • Jens Lichtenberg,
    • Berthold Göttgens,
    • Qunhua Li,
    • David Bodine,
    • Shaun Mahony,
    • James Taylor,
    • Gerd A. Blobel,
    • Mitchell J. Weiss,
    • Yong Cheng,
    • Feng Yue,
    • Jim Hughes,
    • Douglas R. Higgs,
    • Yu Zhang,
    • and Ross C. Hardison
    Genome Res. March 2020 30: 472-484; Published in Advance March 4, 2020, doi:10.1101/gr.255760.119
    OPEN ACCESS ARTICLE
  3. Resource: The full-length transcriptome of C. elegans using direct RNA sequencing
    • Nathan P. Roach,
    • Norah Sadowski,
    • Amelia F. Alessi,
    • Winston Timp,
    • James Taylor,
    • and John K. Kim
    Genome Res. February 2020 30: 299-312; Published in Advance February 5, 2020, doi:10.1101/gr.251314.119
    OPEN ACCESS ARTICLE
  4. Research: Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration
    • Weisheng Wu,
    • Yong Cheng,
    • Cheryl A. Keller,
    • Jason Ernst,
    • Swathi Ashok Kumar,
    • Tejaswini Mishra,
    • Christapher Morrissey,
    • Christine M. Dorman,
    • Kuan-Bei Chen,
    • Daniela Drautz,
    • Belinda Giardine,
    • Yoichiro Shibata,
    • Lingyun Song,
    • Max Pimkin,
    • Gregory E. Crawford,
    • Terrence S. Furey,
    • Manolis Kellis,
    • Webb Miller,
    • James Taylor,
    • Stephan C. Schuster,
    • Yu Zhang,
    • Francesca Chiaromonte,
    • Gerd A. Blobel,
    • Mitchell J. Weiss,
    • and Ross C. Hardison
    Genome Res. October 2011 21: 1659-1671; Published in Advance July 27, 2011, doi:10.1101/gr.125088.111
    OPEN ACCESS ARTICLE
  5. Resource: Windshield splatter analysis with the Galaxy metagenomic pipeline
    • Sergei Kosakovsky Pond,
    • Samir Wadhawan,
    • Francesca Chiaromonte,
    • Guruprasad Ananda,
    • Wen-Yu Chung,
    • James Taylor,
    • Anton Nekrutenko,
    • and The Galaxy Team
    Genome Res. November 2009 19: 2144-2153; Published in Advance October 9, 2009, doi:10.1101/gr.094508.109
    OPEN ACCESS ARTICLE
  6. RESOURCE: 28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
    • Webb Miller,
    • Kate Rosenbloom,
    • Ross C. Hardison,
    • Minmei Hou,
    • James Taylor,
    • Brian Raney,
    • Richard Burhans,
    • David C. King,
    • Robert Baertsch,
    • Daniel Blankenberg,
    • Sergei L. Kosakovsky Pond,
    • Anton Nekrutenko,
    • Belinda Giardine,
    • Robert S. Harris,
    • Svitlana Tyekucheva,
    • Mark Diekhans,
    • Thomas H. Pringle,
    • William J. Murphy,
    • Arthur Lesk,
    • George M. Weinstock,
    • Kerstin Lindblad-Toh,
    • Richard A. Gibbs,
    • Eric S. Lander,
    • Adam Siepel,
    • David Haussler,
    • and W. James Kent
    Genome Res. December 2007 17: 1797-1808; Published in Advance November 5, 2007, doi:10.1101/gr.6761107
  7. 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
  8. RESOURCE: A framework for collaborative analysis of ENCODE data: Making large-scale analyses biologist-friendly
    • Daniel Blankenberg,
    • James Taylor,
    • Ian Schenck,
    • Jianbin He,
    • Yi Zhang,
    • Matthew Ghent,
    • Narayanan Veeraraghavan,
    • Istvan Albert,
    • Webb Miller,
    • Kateryna D. Makova,
    • Ross C. Hardison,
    • and Anton Nekrutenko
    Genome Res. June 2007 17: 960-964; doi:10.1101/gr.5578007
    OPEN ACCESS ARTICLE
  9. LETTER: Finding cis-regulatory elements using comparative genomics: Some lessons from ENCODE data
    • David C. King,
    • James Taylor,
    • Ying Zhang,
    • Yong Cheng,
    • Heather A. Lawson,
    • Joel Martin,
    • ENCODE groups for Transcriptional Regulation and Multispecies Sequence Analysis,
    • Francesca Chiaromonte,
    • Webb Miller,
    • and Ross C. Hardison
    Genome Res. June 2007 17: 775-786; doi:10.1101/gr.5592107
    OPEN ACCESS ARTICLE
  10. LETTER: Experimental validation of predicted mammalian erythroid cis-regulatory modules
    • Hao Wang,
    • Ying Zhang,
    • Yong Cheng,
    • Yuepin Zhou,
    • David C. King,
    • James Taylor,
    • Francesca Chiaromonte,
    • Jyotsna Kasturi,
    • Hanna Petrykowska,
    • Brian Gibb,
    • Christine Dorman,
    • Webb Miller,
    • Louis C. Dore,
    • John Welch,
    • Mitchell J. Weiss,
    • and Ross C. Hardison
    Genome Res. December 2006 16: 1480-1492; Published in Advance October 12, 2006, doi:10.1101/gr.5353806
    OPEN ACCESS ARTICLE
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