The chromatin accessibility landscape of primary human cancers
Corces M.R.2; Granja J.M.2; Shams S.2; Louie B.H.2; Seoane J.A.1; Zhou W.3; Silva T.C.12; Groeneveld C.9; Wong C.K.11; Cho S.W.2; Satpathy A.T.2; Mumbach M.R.2; Hoadley K.A.7; Robertson A.G.10; Sheffield N.C.8; Felau I.5; Castro M.A.A.9; Berman B.P.12; Staudt L.M.5; Zenklusen J.C.5; Laird P.W.3; Curtis C.1; Greenleaf W.J.2; Chang H.Y.2
Source PublicationScience
ISSN10959203 00368075
AbstractWe 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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Cited Times [WOS]:30   [WOS Record]     [Related Records in WOS]
Document TypeJournal article
CollectionUniversity of Macau
Affiliation1.Stanford University School of Medicine
2.Stanford University
3.Van Andel Research Institute
4.Chan Zuckerberg Biohub
5.National Cancer Institute
6.Universidade de Sao Paulo - USP
7.The University of North Carolina at Chapel Hill
8.University of Virginia
9.Universidade Federal do Parana
10.British Columbia Cancer Agency
11.University of California, Santa Cruz
12.Cedars-Sinai Medical Center
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Corces M.R.,Granja J.M.,Shams S.,et al. The chromatin accessibility landscape of primary human cancers[J]. Science,2018,362(6413).
APA Corces M.R..,Granja J.M..,Shams S..,Louie B.H..,Seoane J.A..,...&Chang H.Y..(2018).The chromatin accessibility landscape of primary human cancers.Science,362(6413).
MLA Corces M.R.,et al."The chromatin accessibility landscape of primary human cancers".Science 362.6413(2018).
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