The chromatin accessibility landscape of primary human cancers-Reference-Cited by-同舟云学术

The chromatin accessibility landscape of primary human cancers

Published:2018-10-26 Issue:6413 Volume:362 Page:
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Corces M. Ryan¹^ORCID,Granja Jeffrey M.¹²³,Shams Shadi¹^ORCID,Louie Bryan H.¹,Seoane Jose A.²⁴⁵^ORCID,Zhou Wanding⁶,Silva Tiago C.⁷⁸^ORCID,Groeneveld Clarice⁹,Wong Christopher K.¹⁰^ORCID,Cho Seung Woo¹,Satpathy Ansuman T.¹,Mumbach Maxwell R.¹²,Hoadley Katherine A.¹¹^ORCID,Robertson A. Gordon¹²^ORCID,Sheffield Nathan C.¹³^ORCID,Felau Ina¹⁴,Castro Mauro A. A.⁹,Berman Benjamin P.⁷^ORCID,Staudt Louis M.¹⁴,Zenklusen Jean C.¹⁴,Laird Peter W.⁶^ORCID,Curtis Christina²⁴⁵,Greenleaf William J.¹²³¹⁵¹⁶^ORCID,Chang Howard Y.¹²¹⁷¹⁸,Akbani Rehan,Benz Christopher C.,Boyle Evan A.,Broom Bradley M.,Cherniack Andrew D.,Craft Brian,Demchok John A.,Doane Ashley S.,Elemento Olivier,Ferguson Martin L.,Goldman Mary J.,Hayes D. Neil,He Jing,Hinoue Toshinori,Imielinski Marcin,Jones Steven J. M.,Kemal Anab,Knijnenburg Theo A.,Korkut Anil,Lin De-Chen,Liu Yuexin,Mensah Michael K. A.,Mills Gordon B.,Reuter Vincent P.,Schultz Andre,Shen Hui,Smith Jason P.,Tarnuzzer Roy,Trefflich Sheyla,Wang Zhining,Weinstein John N.,Westlake Lindsay C.,Xu Jin,Yang Liming,Yau Christina,Zhao Yang,Zhu Jingchun,

Affiliation:

1. Center for Personal Dynamic Regulomes, Stanford University, Stanford, CA 94305, USA.

2. Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.

3. Program in Biophysics, Stanford University School of Medicine, Stanford, CA 94305, USA.

4. Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.

5. Stanford Cancer Institute, Stanford University School of Medicine, Stanford, CA 94305, USA.

6. Center for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503, USA.

7. Center for Bioinformatics and Functional Genomics, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.

8. Department of Genetics, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, SP CEP 14.040-905, Brazil.

9. Bioinformatics and Systems Biology Laboratory, Polytechnic Center, Federal University of Paraná, Curitiba, PR CEP 80.060-000, Brazil.

10. Department of Biomolecular Engineering, Center for Biomolecular Sciences and Engineering, University of California–Santa Cruz, Santa Cruz, CA 95064, USA.

11. Department of Genetics, Lineberger Comprehensive Cancer Center, The University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA.

12. Canada’s Michael Smith Genome Sciences Center, BC Cancer Agency, Vancouver, BC V5Z 4S6, Canada.

13. Center for Public Health Genomics, University of Virginia, Charlottesville, VA 22908, USA.

14. National Cancer Institute, NIH, Bethesda, MD 20892, USA.

15. Department of Applied Physics, Stanford University, Stanford, CA 94025, USA.

16. Chan Zuckerberg Biohub, San Francisco, CA 94158, USA.

17. Program in Epithelial Biology, Stanford University, Stanford, CA 94305, USA.

18. Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA.

Abstract

Cancer chromatin accessibility landscape The Cancer Genome Atlas (TCGA) provides a high-quality resource of molecular data on a large variety of human cancers. Corces et al. used a recently modified assay to profile chromatin accessibility to determine the accessible chromatin landscape in 410 TCGA samples from 23 cancer types (see the Perspective by Taipale). When the data were integrated with other omics data available for the same tumor samples, inherited risk loci for cancer predisposition were revealed, transcription factors and enhancers driving molecular subtypes of cancer with patient survival differences were identified, and noncoding mutations associated with clinical prognosis were discovered. Science , this issue p. eaav1898 ; see also p. 401

Funder

National Institutes of Health

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

Reference78 articles.

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2. Epigenetic plasticity and the hallmarks of cancer

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4. Tumors as Organs: Complex Tissues that Interface with the Entire Organism

5. DNA methylation loss in late-replicating domains is linked to mitotic cell division

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