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  • Akdemir, KCUniversity of Texas MD Anderson Cancer Center (author)

Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

  • Article/chapterEnglish2020

Publisher, publication year, extent ...

  • 2020-02-05
  • Springer Science and Business Media LLC,2020

Numbers

  • LIBRIS-ID:oai:prod.swepub.kib.ki.se:142915634
  • http://kipublications.ki.se/Default.aspx?queryparsed=id:142915634URI
  • https://doi.org/10.1038/s41588-019-0564-yDOI
  • https://lup.lub.lu.se/record/1228fbf0-3db4-4126-a102-77440ce7e8cdURI

Supplementary language notes

  • Language:English
  • Summary in:English

Part of subdatabase

Classification

  • Subject category:ref swepub-contenttype
  • Subject category:art swepub-publicationtype

Notes

  • Chromatin is folded into successive layers to organize linear DNA. Genes within the same topologically associating domains (TADs) demonstrate similar expression and histone-modification profiles, and boundaries separating different domains have important roles in reinforcing the stability of these features. Indeed, domain disruptions in human cancers can lead to misregulation of gene expression. However, the frequency of domain disruptions in human cancers remains unclear. Here, as part of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA), which aggregated whole-genome sequencing data from 2,658 cancers across 38 tumor types, we analyzed 288,457 somatic structural variations (SVs) to understand the distributions and effects of SVs across TADs. Notably, SVs can lead to the fusion of discrete TADs, and complex rearrangements markedly change chromatin folding maps in the cancer genomes. Notably, only 14% of the boundary deletions resulted in a change in expression in nearby genes of more than twofold.

Subject headings and genre

Added entries (persons, corporate bodies, meetings, titles ...)

  • Le, VTTSalk Institute for Biological Studies (author)
  • Chandran, SSalk Institute for Biological Studies (author)
  • Li, YLWellcome Trust Sanger Institute (author)
  • Verhaak, RGQIMR Berghofer Medical Research Institute (author)
  • Beroukhim, RDana-Farber Cancer Institute (author)
  • Campbell, PJWellcome Trust Sanger Institute (author)
  • Chin, LUniversity of Texas (author)
  • Dixon, JRSalk Institute for Biological Studies (author)
  • Futreal, PAUniversity of Texas MD Anderson Cancer Center (author)
  • Alvarez, EG (author)
  • Baez-Ortega, A (author)
  • Beroukhim, R (author)
  • Boutros, PC (author)
  • Bowtell, DDL (author)
  • Brors, B (author)
  • Burns, KH (author)
  • Chan, K (author)
  • Chen, K (author)
  • Cortes-Ciriano, I (author)
  • Dueso-Barroso, A (author)
  • Dunford, AJ (author)
  • Edwards, PA (author)
  • Estivill, X (author)
  • Etemadmoghadam, D (author)
  • Feuerbach, L (author)
  • Fink, JL (author)
  • Frenkel-Morgenstern, M (author)
  • Garsed, DW (author)
  • Gerstein, M (author)
  • Gordenin, DA (author)
  • Haan, D (author)
  • Haber, JE (author)
  • Hess, JM (author)
  • Hutter, B (author)
  • Imielinski, M (author)
  • Jones, DTW (author)
  • Ju, YS (author)
  • Kazanov, MD (author)
  • Klimczak, LJ (author)
  • Koh, Y (author)
  • Korbel, JO (author)
  • Kumar, K (author)
  • Lee, EA (author)
  • Lee, JJK (author)
  • Lynch, AG (author)
  • Macintyre, G (author)
  • Markowetz, F (author)
  • Martincorena, I (author)
  • Martinez-Fundichely, A (author)
  • Meyerson, M (author)
  • Miyano, S (author)
  • Nakagawa, H (author)
  • Navarro, FCP (author)
  • Ossowski, S (author)
  • Park, PJ (author)
  • Pearson, JV (author)
  • Puiggros, M (author)
  • Rippe, K (author)
  • Roberts, ND (author)
  • Roberts, SA (author)
  • Rodriguez-Martin, B (author)
  • Schumacher, SE (author)
  • Scully, R (author)
  • Shackleton, M (author)
  • Sidiropoulos, N (author)
  • Sieverling, L (author)
  • Stewart, C (author)
  • Torrents, D (author)
  • Tubio, JMC (author)
  • Villasante, I (author)
  • Waddell, N (author)
  • Wala, JA (author)
  • Weischenfeldt, J (author)
  • Yang, LX (author)
  • Yao, XT (author)
  • Yoon, SS (author)
  • Zamora, J (author)
  • Zhang, CZ (author)
  • Borg, ÅkeLund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,Familjär bröstcancer,Forskargrupper vid Lunds universitet,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine,Familial Breast Cancer,Lund University Research Groups,LUCC: Lund University Cancer Centre,Other Strong Research Environments(Swepub:lu)onk-abo (creator_code:cre_t)
  • Ringnér, MarkusLund University,Lunds universitet,Molekylär cellbiologi,Biologiska institutionen,Naturvetenskapliga fakulteten,Molecular Cell Biology,Department of Biology,Faculty of Science(Swepub:lu)thep-mri (creator_code:cre_t)
  • Staaf, JohanLund University,Lunds universitet,Avdelningen för translationell cancerforskning,Institutionen för laboratoriemedicin,Medicinska fakulteten,Forskningsgrupp Lungcancer,Forskargrupper vid Lunds universitet,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Bröst/lungcancer,Sektion I,Institutionen för kliniska vetenskaper, Lund,Division of Translational Cancer Research,Department of Laboratory Medicine,Faculty of Medicine,Research Group Lung Cancer,Lund University Research Groups,LUCC: Lund University Cancer Centre,Other Strong Research Environments,Breast/lungcancer,Section I,Department of Clinical Sciences, Lund(Swepub:lu)onk-jst (creator_code:cre_t)
  • University of Texas MD Anderson Cancer CenterSalk Institute for Biological Studies (creator_code:org_t)
  • PCAWG Consortium

Related titles

  • In:Nature genetics: Springer Science and Business Media LLC52:3, s. 294-+1546-17181061-4036

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