Searching journal content for Yong Cheng 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. Research: Widespread contribution of transposable elements to the innovation of gene regulatory networks
    • Vasavi Sundaram,
    • Yong Cheng,
    • Zhihai Ma,
    • Daofeng Li,
    • Xiaoyun Xing,
    • Peter Edge,
    • Michael P. Snyder,
    • and Ting Wang
    Genome Res. December 2014 24: 1963-1976; Published in Advance October 15, 2014, doi:10.1101/gr.168872.113
  4. Resource: Annotation of functional variation in personal genomes using RegulomeDB
    • Alan P. Boyle,
    • Eurie L. Hong,
    • Manoj Hariharan,
    • Yong Cheng,
    • Marc A. Schaub,
    • Maya Kasowski,
    • Konrad J. Karczewski,
    • Julie Park,
    • Benjamin C. Hitz,
    • Shuai Weng,
    • J. Michael Cherry,
    • and Michael Snyder
    Genome Res. September 2012 22: 1790-1797; doi:10.1101/gr.137323.112
    OPEN ACCESS ARTICLE
  5. Resource: Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors
    • Jie Wang,
    • Jiali Zhuang,
    • Sowmya Iyer,
    • XinYing Lin,
    • Troy W. Whitfield,
    • Melissa C. Greven,
    • Brian G. Pierce,
    • Xianjun Dong,
    • Anshul Kundaje,
    • Yong Cheng,
    • Oliver J. Rando,
    • Ewan Birney,
    • Richard M. Myers,
    • William S. Noble,
    • Michael Snyder,
    • and Zhiping Weng
    Genome Res. September 2012 22: 1798-1812; doi:10.1101/gr.139105.112
    OPEN ACCESS ARTICLE
  6. 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
  7. Article: Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression
    • Yong Cheng,
    • Weisheng Wu,
    • Swathi Ashok Kumar,
    • Duonan Yu,
    • Wulan Deng,
    • Tamara Tripic,
    • David C. King,
    • Kuan-Bei Chen,
    • Ying Zhang,
    • Daniela Drautz,
    • Belinda Giardine,
    • Stephan C. Schuster,
    • Webb Miller,
    • Francesca Chiaromonte,
    • Yu Zhang,
    • Gerd A. Blobel,
    • Mitchell J. Weiss,
    • and Ross C. Hardison
    Genome Res. December 2009 19: 2172-2184; Published in Advance November 3, 2009, doi:10.1101/gr.098921.109
    OPEN ACCESS ARTICLE
  8. LETTER: Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif
    • Yong Cheng,
    • David C. King,
    • Louis C. Dore,
    • Xinmin Zhang,
    • Yuepin Zhou,
    • Ying Zhang,
    • Christine Dorman,
    • Demesew Abebe,
    • Swathi A. Kumar,
    • Francesca Chiaromonte,
    • Webb Miller,
    • Roland D. Green,
    • Mitchell J. Weiss,
    • and Ross C. Hardison
    Genome Res. December 2008 18: 1896-1905; Published in Advance September 25, 2008, doi:10.1101/gr.083089.108
    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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