Publications

Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer  (2020)

Authors:
Akdemir, Kadir C.; Le, Victoria T.; Chandran, Sahaana; Li, Yilong; Verhaak, Roel G.; Beroukhim, Rameen; Campbell, Peter J.; Chin, Lynda; Dixon, Jesse R.; Futreal, P. Andrew; Akdemir, Kadir C.; Alvarez, Eva G.; Baez-Ortega, Adrian; Boutros, Paul C.; Bowtell, David D. L.; Brors, Benedikt; Burns, Kathleen H.; Campbell, Peter J.; Chan, Kin; Chen, Ken; Cortés-Ciriano, Isidro; Dueso-Barroso, Ana; Dunford, Andrew J.; Edwards, Paul A.; Estivill, Xavier; Etemadmoghadam, Dariush; Feuerbach, Lars; Fink, J. Lynn; Frenkel-Morgenstern, Milana; Garsed, Dale W.; Gerstein, Mark; Gordenin, Dmitry A.; Haan, David; Haber, James E.; Hess, Julian M.; Hutter, Barbara; Imielinski, Marcin; Jones, David T. W.; Ju, Young Seok; Kazanov, Marat D.; Klimczak, Leszek J.; Koh, Youngil; Korbel, Jan O.; Kumar, Kiran; Lee, Eunjung Alice; Lee, Jake June-Koo; Li, Yilong; Lynch, Andy G.; Macintyre, Geoff; Markowetz, Florian; Martincorena, Iñigo; Martinez-Fundichely, Alexander; Meyerson, Matthew; Miyano, Satoru; Nakagawa, Hidewaki; Navarro, Fabio C. P.; Ossowski, Stephan; Park, Peter J.; Pearson, John V.; Puiggròs, Montserrat; Rippe, Karsten; Roberts, Nicola D.; Roberts, Steven A.; Rodriguez-Martin, Bernardo; Schumacher, Steven E.; Scully, Ralph; Shackleton, Mark; Sidiropoulos, Nikos; Sieverling, Lina; Stewart, Chip; Torrents, David; Tubio, Jose M. C.; Villasante, Izar; Waddell, Nicola; Wala, Jeremiah A.; Weischenfeldt, Joachim; Yang, Lixing; Yao, Xiaotong; Yoon, Sung-Soo; Zamora, Jorge; Zhang, Cheng-Zhong; Aaltonen, Lauri A.; Abascal, Federico; Abeshouse, Adam; Aburatani, Hiroyuki; Adams, David J.; Agrawal, Nishant; Ahn, Keun Soo; Ahn, Sung-Min; Aikata, Hiroshi; Akbani, Rehan; Akdemir, Kadir C.; Al-Ahmadie, Hikmat; Al-Sedairy, Sultan T.; Al-Shahrour, Fatima; Alawi, Malik; Albert, Monique; Aldape, Kenneth; Alexandrov, Ludmil B.; Ally, Adrian; Alsop, Kathryn; Alvarez, Eva G.; Amary, Fernanda; Amin, Samirkumar B.; Aminou, Brice; Ammerpohl, Ole; Anderson, Matthew J.; Ang, Yeng; Antonello, Davide; Anur, Pavana; Aparicio, Samuel; Appelbaum, Elizabeth L.; Arai, Yasuhito; Aretz, Axel; Arihiro, Koji; Ariizumi, Shun-ichi; Armenia, Joshua; Arnould, Laurent; Asa, Sylvia; Assenov, Yassen; Atwal, Gurnit; Aukema, Sietse; Auman, J. Todd; Aure, Miriam R. R.; Awadalla, Philip; Aymerich, Marta; Bader, Gary D.; Baez-Ortega, Adrian; Bailey, Matthew H.; Bailey, Peter J.; Balasundaram, Miruna; Balu, Saianand; Bandopadhayay, Pratiti; Banks, Rosamonde E.; Barbi, Stefano; Barbour, Andrew P.; Barenboim, Jonathan; Barnholtz-Sloan, Jill; Barr, Hugh; Barrera, Elisabet; Bartlett, John; Bartolome, Javier; Bassi, Claudio; Bathe, Oliver F.; Baumhoer, Daniel; Bavi, Prashant; Baylin, Stephen B.; Bazant, Wojciech; Beardsmore, Duncan; Beck, Timothy A.; Behjati, Sam; Behren, Andreas; Niu, Beifang; Bell, Cindy; Beltran, Sergi; Benz, Christopher; Berchuck, Andrew; Bergmann, Anke K.; Bergstrom, Erik N.; Berman, Benjamin P.; Berney, Daniel M.; Bernhart, Stephan H.; Beroukhim, Rameen; Berrios, Mario; Bersani, Samantha; Bertl, Johanna; Betancourt, Miguel; Bhandari, Vinayak; Bhosle, Shriram G.; Biankin, Andrew V.; Bieg, Matthias; Bigner, Darell; Binder, Hans; Birney, Ewan; Birrer, Michael; Biswas, Nidhan K.; Bjerkehagen, Bodil; Bodenheimer, Tom; Boice, Lori; Bonizzato, Giada; De Bono, Johann S.; Boot, Arnoud; Bootwalla, Moiz S.; Borg, Ake; Borkhardt, Arndt; Boroevich, Keith A.; Borozan, Ivan; Borst, Christoph; Bosenberg, Marcus; Bosio, Mattia; Boultwood, Jacqueline; Bourque, Guillaume; Boutros, Paul C.; Bova, G. Steven; Bowen, David T.; Bowlby, Reanne; Bowtell, David D. L.; Boyault, Sandrine; Boyce, Rich; Boyd, Jeffrey; Brazma, Alvis; Brennan, Paul; Brewer, Daniel S.; Brinkman, Arie B.; Bristow, Robert G.; Broaddus, Russell R.; Brock, Jane E.; Brock, Malcolm; Broeks, Annegien; Brooks, Angela N.; Brooks, Denise; Brors, Benedikt; Brunak, Søren; Bruxner, Timothy J. C.; Bruzos, Alicia L.; Buchanan, Alex; Buchhalter, Ivo; Buchholz, Christiane; Bullman, Susan; Burke,
Title:
Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer
Year:
2020
Type of item:
Articolo in Rivista
Tipologia ANVUR:
Articolo su rivista
Language:
Inglese
Referee:
No
Name of journal:
Nature Genetics
ISSN of journal:
1061-4036
N° Volume:
52
Number or Folder:
3
Page numbers:
294-305
Keyword:
PCAWG; ICGC. TCGA; topologically associating domains (TADs)
Short description of contents:
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.A pan-cancer genomic analysis reports the effects of structural variations on chromatin domains (TADs). Most TAD disruptions do not result in appreciable changes in expression of nearby genes.
Product ID:
137872
Handle IRIS:
11562/1119566
Last Modified:
May 15, 2024
Bibliographic citation:
Akdemir, Kadir C.; Le, Victoria T.; Chandran, Sahaana; Li, Yilong; Verhaak, Roel G.; Beroukhim, Rameen; Campbell, Peter J.; Chin, Lynda; Dixon, Jesse R.; Futreal, P. Andrew; Akdemir, Kadir C.; Alvarez, Eva G.; Baez-Ortega, Adrian; Boutros, Paul C.; Bowtell, David D. L.; Brors, Benedikt; Burns, Kathleen H.; Campbell, Peter J.; Chan, Kin; Chen, Ken; Cortés-Ciriano, Isidro; Dueso-Barroso, Ana; Dunford, Andrew J.; Edwards, Paul A.; Estivill, Xavier; Etemadmoghadam, Dariush; Feuerbach, Lars; Fink, J. Lynn; Frenkel-Morgenstern, Milana; Garsed, Dale W.; Gerstein, Mark; Gordenin, Dmitry A.; Haan, David; Haber, James E.; Hess, Julian M.; Hutter, Barbara; Imielinski, Marcin; Jones, David T. W.; Ju, Young Seok; Kazanov, Marat D.; Klimczak, Leszek J.; Koh, Youngil; Korbel, Jan O.; Kumar, Kiran; Lee, Eunjung Alice; Lee, Jake June-Koo; Li, Yilong; Lynch, Andy G.; Macintyre, Geoff; Markowetz, Florian; Martincorena, Iñigo; Martinez-Fundichely, Alexander; Meyerson, Matthew; Miyano, Satoru; Nakagawa, Hidewaki; Navarro, Fabio C. P.; Ossowski, Stephan; Park, Peter J.; Pearson, John V.; Puiggròs, Montserrat; Rippe, Karsten; Roberts, Nicola D.; Roberts, Steven A.; Rodriguez-Martin, Bernardo; Schumacher, Steven E.; Scully, Ralph; Shackleton, Mark; Sidiropoulos, Nikos; Sieverling, Lina; Stewart, Chip; Torrents, David; Tubio, Jose M. C.; Villasante, Izar; Waddell, Nicola; Wala, Jeremiah A.; Weischenfeldt, Joachim; Yang, Lixing; Yao, Xiaotong; Yoon, Sung-Soo; Zamora, Jorge; Zhang, Cheng-Zhong; Aaltonen, Lauri A.; Abascal, Federico; Abeshouse, Adam; Aburatani, Hiroyuki; Adams, David J.; Agrawal, Nishant; Ahn, Keun Soo; Ahn, Sung-Min; Aikata, Hiroshi; Akbani, Rehan; Akdemir, Kadir C.; Al-Ahmadie, Hikmat; Al-Sedairy, Sultan T.; Al-Shahrour, Fatima; Alawi, Malik; Albert, Monique; Aldape, Kenneth; Alexandrov, Ludmil B.; Ally, Adrian; Alsop, Kathryn; Alvarez, Eva G.; Amary, Fernanda; Amin, Samirkumar B.; Aminou, Brice; Ammerpohl, Ole; Anderson, Matthew J.; Ang, Yeng; Antonello, Davide; Anur, Pavana; Aparicio, Samuel; Appelbaum, Elizabeth L.; Arai, Yasuhito; Aretz, Axel; Arihiro, Koji; Ariizumi, Shun-ichi; Armenia, Joshua; Arnould, Laurent; Asa, Sylvia; Assenov, Yassen; Atwal, Gurnit; Aukema, Sietse; Auman, J. Todd; Aure, Miriam R. R.; Awadalla, Philip; Aymerich, Marta; Bader, Gary D.; Baez-Ortega, Adrian; Bailey, Matthew H.; Bailey, Peter J.; Balasundaram, Miruna; Balu, Saianand; Bandopadhayay, Pratiti; Banks, Rosamonde E.; Barbi, Stefano; Barbour, Andrew P.; Barenboim, Jonathan; Barnholtz-Sloan, Jill; Barr, Hugh; Barrera, Elisabet; Bartlett, John; Bartolome, Javier; Bassi, Claudio; Bathe, Oliver F.; Baumhoer, Daniel; Bavi, Prashant; Baylin, Stephen B.; Bazant, Wojciech; Beardsmore, Duncan; Beck, Timothy A.; Behjati, Sam; Behren, Andreas; Niu, Beifang; Bell, Cindy; Beltran, Sergi; Benz, Christopher; Berchuck, Andrew; Bergmann, Anke K.; Bergstrom, Erik N.; Berman, Benjamin P.; Berney, Daniel M.; Bernhart, Stephan H.; Beroukhim, Rameen; Berrios, Mario; Bersani, Samantha; Bertl, Johanna; Betancourt, Miguel; Bhandari, Vinayak; Bhosle, Shriram G.; Biankin, Andrew V.; Bieg, Matthias; Bigner, Darell; Binder, Hans; Birney, Ewan; Birrer, Michael; Biswas, Nidhan K.; Bjerkehagen, Bodil; Bodenheimer, Tom; Boice, Lori; Bonizzato, Giada; De Bono, Johann S.; Boot, Arnoud; Bootwalla, Moiz S.; Borg, Ake; Borkhardt, Arndt; Boroevich, Keith A.; Borozan, Ivan; Borst, Christoph; Bosenberg, Marcus; Bosio, Mattia; Boultwood, Jacqueline; Bourque, Guillaume; Boutros, Paul C.; Bova, G. Steven; Bowen, David T.; Bowlby, Reanne; Bowtell, David D. L.; Boyault, Sandrine; Boyce, Rich; Boyd, Jeffrey; Brazma, Alvis; Brennan, Paul; Brewer, Daniel S.; Brinkman, Arie B.; Bristow, Robert G.; Broaddus, Russell R.; Brock, Jane E.; Brock, Malcolm; Broeks, Annegien; Brooks, Angela N.; Brooks, Denise; Brors, Benedikt; Brunak, Søren; Bruxner, Timothy J. C.; Bruzos, Alicia L.; Buchanan, Alex; Buchhalter, Ivo; Buchholz, Christiane; Bullman, Susan; Burke,, Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer «Nature Genetics» , vol. 52 , n. 32020pp. 294-305

Consulta la scheda completa presente nel repository istituzionale della Ricerca di Ateneo IRIS

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