The chromatin accessibility landscape of primary human cancers | Zendy

M. Ryan Corces | Zendy; Jeffrey M. Granja | Zendy; Shadi Shams | Zendy; Bryan H. Louie | Zendy; José A. Seoane | Zendy; Wanding Zhou | Zendy; Tiago C. Silva | Zendy; Clarice S. Groeneveld | Zendy; Christopher K. Wong | Zendy; Seung Woo Cho | Zendy; Ansuman T. Satpathy | Zendy; Maxwell R. Mumbach | Zendy; Katherine A. Hoadley | Zendy; A. Gordon Robertson | Zendy; Nathan C. Sheffield | Zendy; Ina Felau | Zendy; Mauro A. A. Castro | Zendy; Benjamin P. Berman | Zendy; Louis M. Staudt | Zendy; Jean C. Zenklusen | Zendy; Peter W. Laird | Zendy; Christina Curtis | Zendy; William J. Greenleaf | Zendy; Howard Y. Chang | Zendy; Rehan Akbani | Zendy; Christopher C. Benz | Zendy; Evan A. Boyle | Zendy; Bradley M. Broom | Zendy; Andrew D. Cherniack | Zendy; Brian Craft | Zendy; John A. Demchok | Zendy; Ashley S. Doane | Zendy; Olivier Elemento | Zendy; Martin L. Ferguson | Zendy; Mary J. Goldman | Zendy; D. Neil Hayes | Zendy; Jing He | Zendy; Toshinori Hinoue | Zendy; Marcin Imieliński | Zendy; Steven J.M. Jones | Zendy; Anab Kemal | Zendy; Theo Knijnenburg | Zendy; Anil Korkut | Zendy; DeChen Lin | Zendy; Yuexin Liu | Zendy; M.K.A. Mensah | Zendy; Gordon B. Mills | Zendy; Vincent Reuter | Zendy; André Schultz | Zendy; Hui Shen | Zendy; Jason P. Smith | Zendy; Roy Tarnuzzer | Zendy; Sheyla Trefflich | Zendy; Linghua Wang | Zendy; John N. Weinstein | Zendy; Lindsay Westlake | Zendy; Jin Xu | Zendy; Liming Yang | Zendy; Christina Yau | Zendy; Zhao Yang | Zendy; Jingchun Zhu | Zendy

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The chromatin accessibility landscape of primary human cancers

Author(s) -

M. Ryan Corces,

Jeffrey M. Granja,

Shadi Shams,

Bryan H. Louie,

José A. Seoane,

Wanding Zhou,

Tiago C. Silva,

Clarice S. Groeneveld,

Christopher K. Wong,

Seung Woo Cho,

Ansuman T. Satpathy,

Maxwell R. Mumbach,

Katherine A. Hoadley,

A. Gordon Robertson,

Nathan C. Sheffield,

Ina Felau,

Mauro A. A. Castro,

Benjamin P. Berman,

Louis M. Staudt,

Jean C. Zenklusen,

Peter W. Laird,

Christina Curtis,

William J. Greenleaf,

Howard Y. Chang,

Rehan Akbani,

Christopher C. Benz,

Evan A. Boyle,

Bradley M. Broom,

Andrew D. Cherniack,

Brian Craft,

John A. Demchok,

Ashley S. Doane,

Olivier Elemento,

Martin L. Ferguson,

Mary J. Goldman,

D. Neil Hayes,

Jing He,

Toshinori Hinoue,

Marcin Imieliński,

Steven J.M. Jones,

Anab Kemal,

Theo Knijnenburg,

Anil Korkut,

DeChen Lin,

Yuexin Liu,

M.K.A. Mensah,

Gordon B. Mills,

Vincent Reuter,

André Schultz,

Hui Shen,

Jason P. Smith,

Roy Tarnuzzer,

Sheyla Trefflich,

Linghua Wang,

John N. Weinstein,

Lindsay Westlake,

Jin Xu,

Liming Yang,

Christina Yau,

Zhao Yang,

Jingchun Zhu

Publication year - 2018

Publication title -

science

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 12.556

H-Index - 1186

eISSN - 1095-9203

pISSN - 0036-8075

DOI - 10.1126/science.aav1898

Subject(s) - chromatin , primary (astronomy) , computational biology , biology , geography , genetics , dna , physics , astronomy

We present the genome-wide chromatin accessibility profiles of 410 tumor samples spanning 23 cancer types from The Cancer Genome Atlas (TCGA). We identify 562,709 transposase-accessible DNA elements that substantially extend the compendium of known cis-regulatory elements. Integration of ATAC-seq (the assay for transposase-accessible chromatin using sequencing) with TCGA multi-omic data identifies a large number of putative distal enhancers that distinguish molecular subtypes of cancers, uncovers specific driving transcription factors via protein-DNA footprints, and nominates long-range gene-regulatory interactions in cancer. These data reveal genetic risk loci of cancer predisposition as active DNA regulatory elements in cancer, identify gene-regulatory interactions underlying cancer immune evasion, and pinpoint noncoding mutations that drive enhancer activation and may affect patient survival. These results suggest a systematic approach to understanding the noncoding genome in cancer to advance diagnosis and therapy.

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