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Rigshospitalet - a part of Copenhagen University Hospital
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Patterns of somatic structural variation in human cancer genomes

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  1. A roadmap for the Human Developmental Cell Atlas

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  1. Systematic dissection of transcriptional regulatory networks by genome-scale and single-cell CRISPR screens

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  2. Clinical impact of clonal hematopoiesis in patients with lymphoma undergoing ASCT: a national population-based cohort study

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  3. Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

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A key mutational process in cancer is structural variation, in which rearrangements delete, amplify or reorder genomic segments that range in size from kilobases to whole chromosomes1-7. Here we develop methods to group, classify and describe somatic structural variants, using data from 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 tumour types8. Sixteen signatures of structural variation emerged. Deletions have a multimodal size distribution, assort unevenly across tumour types and patients, are enriched in late-replicating regions and correlate with inversions. Tandem duplications also have a multimodal size distribution, but are enriched in early-replicating regions-as are unbalanced translocations. Replication-based mechanisms of rearrangement generate varied chromosomal structures with low-level copy-number gains and frequent inverted rearrangements. One prominent structure consists of 2-7 templates copied from distinct regions of the genome strung together within one locus. Such cycles of templated insertions correlate with tandem duplications, and-in liver cancer-frequently activate the telomerase gene TERT. A wide variety of rearrangement processes are active in cancer, which generate complex configurations of the genome upon which selection can act.

Original languageEnglish
JournalNature
Volume578
Issue number7793
Pages (from-to)112-121
Number of pages10
ISSN0028-0836
DOIs
Publication statusPublished - Feb 2020

ID: 59266046