{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,29]],"date-time":"2026-08-29T11:14:11Z","timestamp":1788002051327,"version":"build-2784847793"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2021,6,29]],"date-time":"2021-06-29T00:00:00Z","timestamp":1624924800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Collaborative Genome Program for Fostering New Post-Genome Industry of the National Research Foundation"},{"DOI":"10.13039\/501100014188","name":"Ministry of Science and ICT","doi-asserted-by":"crossref","award":["NRF-2014M3C9A3063541"],"award-info":[{"award-number":["NRF-2014M3C9A3063541"]}],"id":[{"id":"10.13039\/501100014188","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Korea Health Technology R&D Project through the Korea Health Industry Development Institute"},{"name":"Ministry of Health & Welfare"},{"name":"Republic of Korea","award":["HI15C3224"],"award-info":[{"award-number":["HI15C3224"]}]},{"name":"Bio & Medical Technology Development Program of the National Research Foundation"},{"name":"Ministry of Science & ICT","award":["NRF-2019M3E5D4065965"],"award-info":[{"award-number":["NRF-2019M3E5D4065965"]}]},{"name":"Bio & Medical Technology Development Program of the National Research Foundation"},{"name":"Ministry of Science & ICT","award":["NRF-2019M3E5D307337511"],"award-info":[{"award-number":["NRF-2019M3E5D307337511"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,12,22]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Multi-omics data in molecular biology has accumulated rapidly over the years. Such data contains valuable information for research in medicine and drug discovery. Unfortunately, data-driven research in medicine and drug discovery is challenging for a majority of small research labs due to the large volume of data and the complexity of analysis pipeline.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We present BioVLAB-Cancer-Pharmacogenomics, a bioinformatics system that facilitates analysis of multi-omics data from breast cancer to analyze and investigate intratumor heterogeneity and pharmacogenomics on Amazon Web Services. Our system takes multi-omics data as input to perform tumor heterogeneity analysis in terms of TCGA data and deconvolve-and-match the tumor gene expression to cell line data in CCLE using DNA methylation profiles. We believe that our system can help small research labs perform analysis of tumor multi-omics without worrying about computational infrastructure and maintenance of databases and tools.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>http:\/\/biohealth.snu.ac.kr\/software\/biovlab_cancer_pharmacogenomics.<\/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\/btab478","type":"journal-article","created":{"date-parts":[[2021,6,28]],"date-time":"2021-06-28T11:09:36Z","timestamp":1624878576000},"page":"275-277","source":"Crossref","is-referenced-by-count":3,"title":["BioVLAB-Cancer-Pharmacogenomics: tumor heterogeneity and pharmacogenomics analysis of multi-omics data from tumor on the cloud"],"prefix":"10.1093","volume":"38","author":[{"given":"Sungjoon","family":"Park","sequence":"first","affiliation":[{"name":"Department of Computer Science and Engineering, Seoul National University, Seoul 08840, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dohoon","family":"Lee","sequence":"additional","affiliation":[{"name":"Interdisciplinary Program in Bioinformatics, Seoul National University , Seoul 08840, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Youngkuk","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Computer Science and Engineering, Seoul National University, Seoul 08840, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sangsoo","family":"Lim","sequence":"additional","affiliation":[{"name":"Bioinformatics Institute, Seoul National University , Seoul 08840, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0960-5829","authenticated-orcid":false,"given":"Heejoon","family":"Chae","sequence":"additional","affiliation":[{"name":"Division of Computer Science, Sookmyung Women\u2019s University , Seoul 04310, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5385-9546","authenticated-orcid":false,"given":"Sun","family":"Kim","sequence":"additional","affiliation":[{"name":"Interdisciplinary Program in Bioinformatics, Seoul National University , Seoul 08840, Republic of Korea"},{"name":"Bioinformatics Institute, Seoul National University , Seoul 08840, Republic of Korea"},{"name":"Institute of Engineering Research, Seoul National University , Seoul 08840, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2021,6,29]]},"reference":[{"key":"2023020108385449900_btab478-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":"30","author":"Carter","year":"2012","journal-title":"Nat. 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