{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:45:06Z","timestamp":1740185106795,"version":"3.37.3"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"15","license":[{"start":{"date-parts":[[2018,12,12]],"date-time":"2018-12-12T00:00:00Z","timestamp":1544572800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01 CA61202-07","P01 CA91955-11"],"award-info":[{"award-number":["R01 CA61202-07","P01 CA91955-11"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Brian Reid","award":["R01 CA140657"],"award-info":[{"award-number":["R01 CA140657"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>CNValidator assesses the quality of somatic copy-number calls based on coherency of haplotypes across multiple samples from the same individual. It is applicable to any copy-number calling algorithm, which makes calls independently for each sample. This test is useful in assessing the accuracy of copy-number calls, as well as choosing among alternative copy-number algorithms or tuning parameter values.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>On a dataset of somatic samples from individuals with Barrett\u2019s Esophagus, CNValidator provided feedback on the correctness of sample ploidy calls and also detected data quality issues.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>CNValidator is available on GitHub at https:\/\/github.com\/kuhnerlab\/CNValidator.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty1022","type":"journal-article","created":{"date-parts":[[2018,12,11]],"date-time":"2018-12-11T04:17:45Z","timestamp":1544501865000},"page":"2660-2662","source":"Crossref","is-referenced-by-count":3,"title":["CNValidator: validating somatic copy-number inference"],"prefix":"10.1093","volume":"35","author":[{"given":"Lucian P","family":"Smith","sequence":"first","affiliation":[{"name":"Department of Genome Sciences, University of Washington, Seattle, WA, USA"}]},{"given":"Jon A","family":"Yamato","sequence":"additional","affiliation":[{"name":"Department of Genome Sciences, University of Washington, Seattle, WA, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6986-3870","authenticated-orcid":false,"given":"Mary K","family":"Kuhner","sequence":"additional","affiliation":[{"name":"Department of Genome Sciences, University of Washington, Seattle, WA, USA"}]}],"member":"286","published-online":{"date-parts":[[2018,12,12]]},"reference":[{"key":"2023062713152306000_bty1022-B1","doi-asserted-by":"crossref","first-page":"413","DOI":"10.1038\/nbt.2203","article-title":"Absolute quantification of somatic DNA alterations in human cancer","volume":"29","author":"Carter","year":"2012","journal-title":"Nat. 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