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@ARTICLE{Akdemir:153753,
      author       = {K. C. Akdemir and V. T. Le and S. Chandran and Y. Li and R.
                      G. Verhaak and R. Beroukhim and P. J. Campbell and L. Chin
                      and J. R. Dixon and P. A. Futreal and K. C. Akdemir and E.
                      G. Alvarez and A. Baez-Ortega and R. Beroukhim and P. C.
                      Boutros and D. D. L. Bowtell and B. Brors$^*$ and K. H.
                      Burns and P. J. Campbell and K. Chan and K. Chen and I.
                      Cortés-Ciriano and A. Dueso-Barroso and A. J. Dunford and
                      P. A. Edwards and X. Estivill and D. Etemadmoghadam and L.
                      Feuerbach$^*$ and J. L. Fink and M. Frenkel-Morgenstern and
                      D. W. Garsed and M. Gerstein and D. A. Gordenin and D. Haan
                      and J. E. Haber and J. M. Hess and B. Hutter$^*$ and M.
                      Imielinski and D. T. W. Jones$^*$ and Y. S. Ju and M. D.
                      Kazanov and L. J. Klimczak and Y. Koh and J. O. Korbel and
                      K. Kumar and E. A. Lee and J. J. Lee and Y. Li and A. G.
                      Lynch and G. Macintyre and F. Markowetz and I. Martincorena
                      and A. Martinez-Fundichely and M. Meyerson and S. Miyano and
                      H. Nakagawa and F. C. P. Navarro and S. Ossowski and P. J.
                      Park and J. V. Pearson and M. Puiggròs and K. Rippe$^*$ and
                      N. D. Roberts and S. A. Roberts and B. Rodriguez-Martin and
                      S. E. Schumacher and R. Scully and M. Shackleton and N.
                      Sidiropoulos and L. Sieverling$^*$ and C. Stewart and H.
                      Sültmann$^*$ and D. Torrents and J. M. C. Tubio and I.
                      Villasante and N. Waddell and J. A. Wala and J.
                      Weischenfeldt and L. Yang and X. Yao and S.-S. Yoon and J.
                      Zamora and C.-Z. Zhang},
      collaboration = {P. S. V. W. Group and P. Consortium},
      title        = {{D}isruption of chromatin folding domains by somatic
                      genomic rearrangements in human cancer.},
      journal      = {Nature genetics},
      volume       = {52},
      number       = {3},
      issn         = {1546-1718},
      address      = {London},
      publisher    = {Macmillan Publishers Limited, part of Springer Nature},
      reportid     = {DKFZ-2020-00438},
      pages        = {294-305},
      year         = {2020},
      note         = {2020 Mar;52(3):294-305},
      abstract     = {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.},
      cin          = {B330 / B360 / B066 / B060 / HD01 / B340 / B063},
      ddc          = {570},
      cid          = {I:(DE-He78)B330-20160331 / I:(DE-He78)B360-20160331 /
                      I:(DE-He78)B066-20160331 / I:(DE-He78)B060-20160331 /
                      I:(DE-He78)HD01-20160331 / I:(DE-He78)B340-20160331 /
                      I:(DE-He78)B063-20160331},
      pnm          = {312 - Functional and structural genomics (POF3-312)},
      pid          = {G:(DE-HGF)POF3-312},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:32024999},
      doi          = {10.1038/s41588-019-0564-y},
      url          = {https://inrepo02.dkfz.de/record/153753},
}