Searching journal content for John A. Stamatoyannopoulos in author.

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  1. Method: Co-expression networks reveal the tissue-specific regulation of transcription and splicing
    • Ashis Saha,
    • Yungil Kim,
    • Ariel D.H. Gewirtz,
    • Brian Jo,
    • Chuan Gao,
    • Ian C. McDowell,
    • The GTEx Consortium,
    • Barbara E. Engelhardt,
    • and Alexis Battle
    Genome Res. November 2017 27: 1843-1858; Published in Advance October 11, 2017, doi:10.1101/gr.216721.116
    OPEN ACCESS ARTICLE
  2. Method: Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis
    • Fan Yang,
    • Jiebiao Wang,
    • The GTEx Consortium,
    • Brandon L. Pierce,
    • and Lin S. Chen
    Genome Res. November 2017 27: 1859-1871; Published in Advance October 11, 2017, doi:10.1101/gr.216754.116
  3. Research: Dynamics of chromatin accessibility and long-range interactions in response to glucocorticoid pulsing
    • Diana A. Stavreva,
    • Antoine Coulon,
    • Songjoon Baek,
    • Myong-Hee Sung,
    • Sam John,
    • Lenka Stixova,
    • Martina Tesikova,
    • Ofir Hakim,
    • Tina Miranda,
    • Mary Hawkins,
    • John A. Stamatoyannopoulos,
    • Carson C. Chow,
    • and Gordon L. Hager
    Genome Res. June 2015 25: 845-857; Published in Advance February 12, 2015, doi:10.1101/gr.184168.114
  4. Research: Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions
    • Nathan C. Sheffield,
    • Robert E. Thurman,
    • Lingyun Song,
    • Alexias Safi,
    • John A. Stamatoyannopoulos,
    • Boris Lenhard,
    • Gregory E. Crawford,
    • and Terrence S. Furey
    Genome Res. May 2013 23: 777-788; Published in Advance March 12, 2013, doi:10.1101/gr.152140.112
    OPEN ACCESS ARTICLE
  5. Resource: Dynamic DNA methylation across diverse human cell lines and tissues
    • Katherine E. Varley,
    • Jason Gertz,
    • Kevin M. Bowling,
    • Stephanie L. Parker,
    • Timothy E. Reddy,
    • Florencia Pauli-Behn,
    • Marie K. Cross,
    • Brian A. Williams,
    • John A. Stamatoyannopoulos,
    • Gregory E. Crawford,
    • Devin M. Absher,
    • Barbara J. Wold,
    • and Richard M. Myers
    Genome Res. March 2013 23: 555-567; Published in Advance January 16, 2013, doi:10.1101/gr.147942.112
  6. Perspective: What does our genome encode?
    • John A. Stamatoyannopoulos
    Genome Res. September 2012 22: 1602-1611; doi:10.1101/gr.146506.112
    OPEN ACCESS ARTICLE
  7. Research: Widespread plasticity in CTCF occupancy linked to DNA methylation
    • Hao Wang,
    • Matthew T. Maurano,
    • Hongzhu Qu,
    • Katherine E. Varley,
    • Jason Gertz,
    • Florencia Pauli,
    • Kristen Lee,
    • Theresa Canfield,
    • Molly Weaver,
    • Richard Sandstrom,
    • Robert E. Thurman,
    • Rajinder Kaul,
    • Richard M. Myers,
    • and John A. Stamatoyannopoulos
    Genome Res. September 2012 22: 1680-1688; doi:10.1101/gr.136101.111
    OPEN ACCESS ARTICLE
  8. Research: Personal and population genomics of human regulatory variation
    • Benjamin Vernot,
    • Andrew B. Stergachis,
    • Matthew T. Maurano,
    • Jeff Vierstra,
    • Shane Neph,
    • Robert E. Thurman,
    • John A. Stamatoyannopoulos,
    • and Joshua M. Akey
    Genome Res. September 2012 22: 1689-1697; doi:10.1101/gr.134890.111
    OPEN ACCESS ARTICLE
  9. Resource: ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
    • Stephen G. Landt,
    • Georgi K. Marinov,
    • Anshul Kundaje,
    • Pouya Kheradpour,
    • Florencia Pauli,
    • Serafim Batzoglou,
    • Bradley E. Bernstein,
    • Peter Bickel,
    • James B. Brown,
    • Philip Cayting,
    • Yiwen Chen,
    • Gilberto DeSalvo,
    • Charles Epstein,
    • Katherine I. Fisher-Aylor,
    • Ghia Euskirchen,
    • Mark Gerstein,
    • Jason Gertz,
    • Alexander J. Hartemink,
    • Michael M. Hoffman,
    • Vishwanath R. Iyer,
    • Youngsook L. Jung,
    • Subhradip Karmakar,
    • Manolis Kellis,
    • Peter V. Kharchenko,
    • Qunhua Li,
    • Tao Liu,
    • X. Shirley Liu,
    • Lijia Ma,
    • Aleksandar Milosavljevic,
    • Richard M. Myers,
    • Peter J. Park,
    • Michael J. Pazin,
    • Marc D. Perry,
    • Debasish Raha,
    • Timothy E. Reddy,
    • Joel Rozowsky,
    • Noam Shoresh,
    • Arend Sidow,
    • Matthew Slattery,
    • John A. Stamatoyannopoulos,
    • Michael Y. Tolstorukov,
    • Kevin P. White,
    • Simon Xi,
    • Peggy J. Farnham,
    • Jason D. Lieb,
    • Barbara J. Wold,
    • and Michael Snyder
    Genome Res. September 2012 22: 1813-1831; doi:10.1101/gr.136184.111
    OPEN ACCESS ARTICLE
  10. Research: Late-replicating heterochromatin is characterized by decreased cytosine methylation in the human genome
    • Masako Suzuki,
    • Mayumi Oda,
    • María-Paz Ramos,
    • Marién Pascual,
    • Kevin Lau,
    • Edyta Stasiek,
    • Frederick Agyiri,
    • Reid F. Thompson,
    • Jacob L. Glass,
    • Qiang Jing,
    • Richard Sandstrom,
    • Melissa J. Fazzari,
    • R. Scott Hansen,
    • John A. Stamatoyannopoulos,
    • Andrew S. McLellan,
    • and John M. Greally
    Genome Res. November 2011 21: 1833-1840; Published in Advance September 28, 2011, doi:10.1101/gr.116509.110
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