{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T06:11:29Z","timestamp":1772345489514,"version":"3.50.1"},"reference-count":28,"publisher":"Oxford University Press (OUP)","issue":"W1","license":[{"start":{"date-parts":[[2020,5,25]],"date-time":"2020-05-25T00:00:00Z","timestamp":1590364800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100007937","name":"Peking University","doi-asserted-by":"publisher","award":["PKU2018LCXQ015"],"award-info":[{"award-number":["PKU2018LCXQ015"]}],"id":[{"id":"10.13039\/501100007937","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Peking University Cancer Hospital","award":["16-01"],"award-info":[{"award-number":["16-01"]}]},{"name":"PKU-Baidu Fund","award":["2019BD012"],"award-info":[{"award-number":["2019BD012"]}]},{"name":"Michigan Medicine-PKUHSC","award":["BMU2019JI010"],"award-info":[{"award-number":["BMU2019JI010"]}]},{"DOI":"10.13039\/501100005088","name":"Beijing Municipal Bureau of Health","doi-asserted-by":"publisher","award":["2019-1"],"award-info":[{"award-number":["2019-1"]}],"id":[{"id":"10.13039\/501100005088","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,7,2]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Recent large-scale multi-omics studies resulted in quick accumulation of an overwhelming amount of cancer-related data, which provides an unprecedented resource to interrogate diverse questions. While certain existing web servers are valuable and widely used, analysis and visualization functions with regard to re-investigation of these data at cohort level are not adequately addressed. Here, we present CVCDAP, a web-based platform to deliver an interactive and customizable toolbox off the shelf for cohort-level analysis of TCGA and CPTAC public datasets, as well as user uploaded datasets. CVCDAP allows flexible selection of patients sharing common molecular and\/or clinical characteristics across multiple studies as a virtual cohort, and provides dozens of built-in customizable tools for seamless genomic, transcriptomic, proteomic and clinical analysis of a single virtual cohort, as well as, to compare two virtual cohorts with relevance. The flexibility and analytic competence of CVCDAP empower experimental and clinical researchers to identify new molecular mechanisms and develop potential therapeutic approaches, by building and analyzing virtual cohorts for their subject of interests. We demonstrate that CVCDAP can conveniently reproduce published findings and reveal novel insights by two applications. The CVCDAP web server is freely available at https:\/\/omics.bjcancer.org\/cvcdap\/.<\/jats:p>","DOI":"10.1093\/nar\/gkaa423","type":"journal-article","created":{"date-parts":[[2020,5,12]],"date-time":"2020-05-12T19:10:09Z","timestamp":1589310609000},"page":"W463-W471","source":"Crossref","is-referenced-by-count":22,"title":["CVCDAP: an integrated platform for molecular and clinical analysis of cancer virtual cohorts"],"prefix":"10.1093","volume":"48","author":[{"given":"Xiaoqing","family":"Guan","sequence":"first","affiliation":[{"name":"Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education\/Beijing), Center for Cancer Bioinformatics, Peking University Cancer Hospital and Institute, Beijing 100142, China"},{"name":"Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education\/Beijing), Gastrointestinal Cancer Center, Peking University Cancer Hospital and Institute, Beijing 100142, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Meng","family":"Cai","sequence":"additional","affiliation":[{"name":"Institute of Systems Biomedicine, Department of Medical Bioinformatics, School of Basic Medical Sciences, Peking University Health Science Center, Beijing 100191, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yang","family":"Du","sequence":"additional","affiliation":[{"name":"Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education\/Beijing), Center for Cancer Bioinformatics, Peking University Cancer Hospital and Institute, Beijing 100142, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ence","family":"Yang","sequence":"additional","affiliation":[{"name":"Institute of Systems Biomedicine, Department of Medical Bioinformatics, School of Basic Medical Sciences, Peking University Health Science Center, Beijing 100191, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6878-5543","authenticated-orcid":false,"given":"Jiafu","family":"Ji","sequence":"additional","affiliation":[{"name":"Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education\/Beijing), Gastrointestinal Cancer Center, Peking University Cancer Hospital and Institute, Beijing 100142, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8876-128X","authenticated-orcid":false,"given":"Jianmin","family":"Wu","sequence":"additional","affiliation":[{"name":"Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education\/Beijing), Center for Cancer Bioinformatics, Peking University Cancer Hospital and Institute, Beijing 100142, China"},{"name":"Peking University International Cancer Institute, Peking University, Beijing 100191, China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,5,25]]},"reference":[{"key":"2020082004072317900_B1","doi-asserted-by":"crossref","first-page":"1113","DOI":"10.1038\/ng.2764","article-title":"The cancer genome atlas Pan-Cancer analysis project","volume":"45","author":"Cancer Genome Atlas Research Network","year":"2013","journal-title":"Nat. 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