{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,17]],"date-time":"2026-03-17T08:01:52Z","timestamp":1773734512062,"version":"3.50.1"},"reference-count":37,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2023,2,20]],"date-time":"2023-02-20T00:00:00Z","timestamp":1676851200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012600","name":"ShanghaiTech University","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100012600","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31771373"],"award-info":[{"award-number":["31771373"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003399","name":"Shanghai Science and Technology Committee","doi-asserted-by":"publisher","award":["21ZR1442400"],"award-info":[{"award-number":["21ZR1442400"]}],"id":[{"id":"10.13039\/501100003399","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,3,19]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Copy number alterations (CNAs) are a predominant source of genetic alterations in human cancer and play an important role in cancer progression. However comprehensive understanding of the mutational processes and signatures of CNA is still lacking. Here we developed a mechanism-agnostic method to categorize CNA based on various fragment properties, which reflect the consequences of mutagenic processes and can be extracted from different types of data, including whole genome sequencing (WGS) and single nucleotide polymorphism (SNP) array. The 14 signatures of CNA have been extracted from 2778 pan-cancer analysis of whole genomes WGS samples, and further validated with 10\u00a0851 the cancer genome atlas SNP array dataset. Novel patterns of CNA have been revealed through this study. The activities of some CNA signatures consistently predict cancer patients\u2019 prognosis. This study provides a repertoire for understanding the signatures of CNA in cancer, with potential implications for cancer prognosis, evolution and etiology.<\/jats:p>","DOI":"10.1093\/bib\/bbad053","type":"journal-article","created":{"date-parts":[[2023,1,28]],"date-time":"2023-01-28T08:22:38Z","timestamp":1674894158000},"source":"Crossref","is-referenced-by-count":27,"title":["The repertoire of copy number alteration signatures in human cancer"],"prefix":"10.1093","volume":"24","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3272-1227","authenticated-orcid":false,"given":"Ziyu","family":"Tao","sequence":"first","affiliation":[{"name":"ShanghaiTech University School of Life Science and Technology, , Shanghai 201203 , China"},{"name":"Chinese Academy of Sciences Shanghai Institute of Biochemistry and Cell Biology, , Shanghai, China"},{"name":"University of Chinese Academy of Sciences , Beijing, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9855-7357","authenticated-orcid":false,"given":"Shixiang","family":"Wang","sequence":"additional","affiliation":[{"name":"ShanghaiTech University School of Life Science and Technology, , Shanghai 201203 , China"},{"name":"Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Bioinformatics Platform, Department of Experimental Research, , Guangzhou 510060 , China"}]},{"given":"Chenxu","family":"Wu","sequence":"additional","affiliation":[{"name":"ShanghaiTech University School of Life Science and Technology, , Shanghai 201203 , China"},{"name":"Chinese Academy of Sciences Shanghai Institute of Biochemistry and Cell Biology, , Shanghai, China"},{"name":"University of Chinese Academy of Sciences , Beijing, 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