{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T05:42:17Z","timestamp":1773812537920,"version":"3.50.1"},"reference-count":41,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2021,11,26]],"date-time":"2021-11-26T00:00:00Z","timestamp":1637884800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/100008762","name":"Genome Canada","doi-asserted-by":"publisher","award":["15414"],"award-info":[{"award-number":["15414"]}],"id":[{"id":"10.13039\/100008762","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100009812","name":"Princess Margaret Cancer Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100009812","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Princess Margaret Data Science Program"},{"DOI":"10.13039\/100012118","name":"Ontario Institute for Cancer Research","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100012118","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100013873","name":"Government of Ontario","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100013873","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008762","name":"Genome Canada","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008762","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Cancer pharmacogenomics studies provide valuable insights into disease progression and associations between genomic features and drug response. PharmacoDB integrates multiple cancer pharmacogenomics datasets profiling approved and investigational drugs across cell lines from diverse tissue types. The web-application enables users to efficiently navigate across datasets, view and compare drug dose\u2013response data for a specific drug-cell line pair. In the new version of PharmacoDB (version 2.0, https:\/\/pharmacodb.ca\/), we present (i) new datasets such as NCI-60, the Profiling Relative Inhibition Simultaneously in Mixtures (PRISM) dataset, as well as updated data from the Genomics of Drug Sensitivity in Cancer (GDSC) and the Genentech Cell Line Screening Initiative (gCSI); (ii) implementation of FAIR data pipelines using ORCESTRA and PharmacoDI; (iii) enhancements to drug\u2013response analysis such as tissue distribution of dose\u2013response metrics and biomarker analysis; and (iv) improved connectivity to drug and cell line databases in the community. The web interface has been rewritten using a modern technology stack to ensure scalability and standardization to accommodate growing pharmacogenomics datasets. PharmacoDB 2.0 is a valuable tool for mining pharmacogenomics datasets, comparing and assessing drug\u2013response phenotypes of cancer models.<\/jats:p>","DOI":"10.1093\/nar\/gkab1084","type":"journal-article","created":{"date-parts":[[2021,10,20]],"date-time":"2021-10-20T23:13:35Z","timestamp":1634771615000},"page":"D1348-D1357","source":"Crossref","is-referenced-by-count":29,"title":["PharmacoDB 2.0: improving scalability and transparency of\n                    <i>in vitro<\/i>\n                    pharmacogenomics analysis"],"prefix":"10.1093","volume":"50","author":[{"given":"Nikta","family":"Feizi","sequence":"first","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0693-9994","authenticated-orcid":false,"given":"Sisira Kadambat","family":"Nair","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9395-8450","authenticated-orcid":false,"given":"Petr","family":"Smirnov","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"},{"name":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada"}]},{"given":"Gangesh","family":"Beri","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"given":"Christopher","family":"Eeles","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"given":"Parinaz Nasr","family":"Esfahani","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"given":"Minoru","family":"Nakano","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"given":"Denis","family":"Tkachuk","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"}]},{"given":"Anthony","family":"Mammoliti","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"},{"name":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada"}]},{"given":"Evgeniya","family":"Gorobets","sequence":"additional","affiliation":[{"name":"Department of Cell and Systems Biology, University of Toronto, Toronto, ON M5S 3G5, Canada"}]},{"given":"Arvind Singh","family":"Mer","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"},{"name":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada"}]},{"given":"Eva","family":"Lin","sequence":"additional","affiliation":[{"name":"Department of Discovery Oncology, Genentech Inc, South San Francisco, CA 94080, USA"}]},{"given":"Yihong","family":"Yu","sequence":"additional","affiliation":[{"name":"Department of Discovery Oncology, Genentech Inc, South San Francisco, CA 94080, USA"}]},{"given":"Scott","family":"Martin","sequence":"additional","affiliation":[{"name":"Department of Discovery Oncology, Genentech Inc, South San Francisco, CA 94080, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1337-7598","authenticated-orcid":false,"given":"Marc","family":"Hafner","sequence":"additional","affiliation":[{"name":"Department of Oncology Bioinformatics, Genentech Inc, South San Francisco, CA 94080, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7684-0079","authenticated-orcid":false,"given":"Benjamin","family":"Haibe-Kains","sequence":"additional","affiliation":[{"name":"Princess Margaret Cancer Centre, University Health Network, Toronto, ON\u00a0M5G 2C1, Canada"},{"name":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada"},{"name":"Department of Computer Science, University of Toronto, Toronto, ON M5T 3A1, Canada"},{"name":"Ontario Institute for Cancer Research, Toronto, ON M5G 0A3, Canada"},{"name":"Vector Institute for Artificial Intelligence, Toronto, ON M5G 1M1, Canada"}]}],"member":"286","published-online":{"date-parts":[[2021,11,26]]},"reference":[{"key":"2022010507302594800_B1","doi-asserted-by":"crossref","first-page":"813","DOI":"10.1038\/nrc1951","article-title":"The NCI60 human tumour cell line anticancer drug screen","volume":"6","author":"Shoemaker","year":"2006","journal-title":"Nat. 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