Searching journal content for Manolis Kellis in author.

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  1. Resource: Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci
    • Jonathan M. Mudge,
    • Irwin Jungreis,
    • Toby Hunt,
    • Jose Manuel Gonzalez,
    • James C. Wright,
    • Mike Kay,
    • Claire Davidson,
    • Stephen Fitzgerald,
    • Ruth Seal,
    • Susan Tweedie,
    • Liang He,
    • Robert M. Waterhouse,
    • Yue Li,
    • Elspeth Bruford,
    • Jyoti S. Choudhary,
    • Adam Frankish,
    • and Manolis Kellis
    Genome Res. December 2019 29: 2073-2087; Published in Advance September 19, 2019, doi:10.1101/gr.246462.118
    OPEN ACCESS ARTICLE
  2. Research: An AR-ERG transcriptional signature defined by long-range chromatin interactomes in prostate cancer cells
    • Zhizhuo Zhang,
    • Kern Rei Chng,
    • Shreyas Lingadahalli,
    • Zikai Chen,
    • Mei Hui Liu,
    • Huy Hoang Do,
    • Shaojiang Cai,
    • Nicola Rinaldi,
    • Huay Mei Poh,
    • Guoliang Li,
    • Ying Ying Sung,
    • Charlie L. Heng,
    • Leighton J. Core,
    • Si Kee Tan,
    • Xiaoan Ruan,
    • John T. Lis,
    • Manolis Kellis,
    • Yijun Ruan,
    • Wing-Kin Sung,
    • and Edwin Cheung
    Genome Res. February 2019 29: 223-235; Published in Advance January 3, 2019, doi:10.1101/gr.230243.117
  3. 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
  4. 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
  5. Resource: Comparative validation of the D. melanogaster modENCODE transcriptome annotation
    • Zhen-Xia Chen,
    • David Sturgill,
    • Jiaxin Qu,
    • Huaiyang Jiang,
    • Soo Park,
    • Nathan Boley,
    • Ana Maria Suzuki,
    • Anthony R. Fletcher,
    • David C. Plachetzki,
    • Peter C. FitzGerald,
    • Carlo G. Artieri,
    • Joel Atallah,
    • Olga Barmina,
    • James B. Brown,
    • Kerstin P. Blankenburg,
    • Emily Clough,
    • Abhijit Dasgupta,
    • Sai Gubbala,
    • Yi Han,
    • Joy C. Jayaseelan,
    • Divya Kalra,
    • Yoo-Ah Kim,
    • Christie L. Kovar,
    • Sandra L. Lee,
    • Mingmei Li,
    • James D. Malley,
    • John H. Malone,
    • Tittu Mathew,
    • Nicolas R. Mattiuzzo,
    • Mala Munidasa,
    • Donna M. Muzny,
    • Fiona Ongeri,
    • Lora Perales,
    • Teresa M. Przytycka,
    • Ling-Ling Pu,
    • Garrett Robinson,
    • Rebecca L. Thornton,
    • Nehad Saada,
    • Steven E. Scherer,
    • Harold E. Smith,
    • Charles Vinson,
    • Crystal B. Warner,
    • Kim C. Worley,
    • Yuan-Qing Wu,
    • Xiaoyan Zou,
    • Peter Cherbas,
    • Manolis Kellis,
    • Michael B. Eisen,
    • Fabio Piano,
    • Karin Kionte,
    • David H. Fitch,
    • Paul W. Sternberg,
    • Asher D. Cutter,
    • Michael O. Duff,
    • Roger A. Hoskins,
    • Brenton R. Graveley,
    • Richard A. Gibbs,
    • Peter J. Bickel,
    • Artyom Kopp,
    • Piero Carninci,
    • Susan E. Celniker,
    • Brian Oliver,
    • and Stephen Richards
    Genome Res. July 2014 24: 1209-1223; Published in Advance July 1, 2014, doi:10.1101/gr.159384.113
    OPEN ACCESS ARTICLE
  6. Resource: Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster
    • Matthew Slattery,
    • Lijia Ma,
    • Rebecca F. Spokony,
    • Robert K. Arthur,
    • Pouya Kheradpour,
    • Anshul Kundaje,
    • Nicolas Nègre,
    • Alex Crofts,
    • Ryan Ptashkin,
    • Jennifer Zieba,
    • Alexander Ostapenko,
    • Sarah Suchy,
    • Alec Victorsen,
    • Nader Jameel,
    • A. Jason Grundstad,
    • Wenxuan Gao,
    • Jennifer R. Moran,
    • E. Jay Rehm,
    • Robert L. Grossman,
    • Manolis Kellis,
    • and Kevin P. White
    Genome Res. July 2014 24: 1224-1235; Published in Advance July 1, 2014, doi:10.1101/gr.168807.113
    OPEN ACCESS ARTICLE
  7. Research: Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals
    • Stefan Washietl,
    • Manolis Kellis,
    • and Manuel Garber
    Genome Res. April 2014 24: 616-628; Published in Advance January 15, 2014, doi:10.1101/gr.165035.113
  8. Method: Most parsimonious reconciliation in the presence of gene duplication, loss, and deep coalescence using labeled coalescent trees
    • Yi-Chieh Wu,
    • Matthew D. Rasmussen,
    • Mukul S. Bansal,
    • and Manolis Kellis
    Genome Res. March 2014 24: 475-486; Published in Advance December 5, 2013, doi:10.1101/gr.161968.113
    OPEN ACCESS ARTICLE
  9. Resource: Integrating and mining the chromatin landscape of cell-type specificity using self-organizing maps
    • Ali Mortazavi,
    • Shirley Pepke,
    • Camden Jansen,
    • Georgi K. Marinov,
    • Jason Ernst,
    • Manolis Kellis,
    • Ross C. Hardison,
    • Richard M. Myers,
    • and Barbara J. Wold
    Genome Res. December 2013 23: 2136-2148; Published in Advance October 29, 2013, doi:10.1101/gr.158261.113
    OPEN ACCESS ARTICLE
  10. Research: Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types
    • Jason Ernst and
    • Manolis Kellis
    Genome Res. July 2013 23: 1142-1154; Published in Advance April 17, 2013, doi:10.1101/gr.144840.112
    OPEN ACCESS ARTICLE
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