{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T05:57:24Z","timestamp":1773295044204,"version":"3.50.1"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"18","funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["ULI RR033183"],"award-info":[{"award-number":["ULI RR033183"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["KL2 RR0333182"],"award-info":[{"award-number":["KL2 RR0333182"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Summary: The integrative analysis of multiple high-throughput data sources that are available for a common sample set is an increasingly common goal in biomedical research. Joint and individual variation explained (JIVE) is a tool for exploratory dimension reduction that decomposes a multi-source dataset into three terms: a low-rank approximation capturing joint variation across sources, low-rank approximations for structured variation individual to each source and residual noise. JIVE has been used to explore multi-source data for a variety of application areas but its accessibility was previously limited. We introduce R.JIVE, an intuitive R package to perform JIVE and visualize the results. We discuss several improvements and extensions of the JIVE methodology that are included. We illustrate the package with an application to multi-source breast tumor data from The Cancer Genome Atlas.<\/jats:p><jats:p>Availability and Implementation: R.JIVE is available via the Comprehensive R Archive Network (CRAN) under the GPLv3 license: https:\/\/cran.r-project.org\/web\/packages\/r.jive\/.<\/jats:p><jats:p>Contact: \u00a0elock@umn.edu<\/jats:p><jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btw324","type":"journal-article","created":{"date-parts":[[2016,6,7]],"date-time":"2016-06-07T02:23:25Z","timestamp":1465266205000},"page":"2877-2879","source":"Crossref","is-referenced-by-count":72,"title":["R.JIVE for exploration of multi-source molecular data"],"prefix":"10.1093","volume":"32","author":[{"given":"Michael J.","family":"O\u2019Connell","sequence":"first","affiliation":[{"name":"Division of Biostatistics, University of Minnesota, Minneapolis, MN 55455, USA"}]},{"given":"Eric F.","family":"Lock","sequence":"additional","affiliation":[{"name":"Division of Biostatistics, University of Minnesota, Minneapolis, MN 55455, USA"}]}],"member":"286","published-online":{"date-parts":[[2016,6,6]]},"reference":[{"key":"2023020113392995900_btw324-B1","doi-asserted-by":"crossref","first-page":"61","DOI":"10.1038\/nature11412","article-title":"Comprehensive molecular portraits of human breast tumours","volume":"490","author":"Cancer Genome Atlas Network","year":"2012","journal-title":"Nature"},{"key":"2023020113392995900_btw324-B2","doi-asserted-by":"crossref","DOI":"10.1093\/biostatistics\/kxw005","article-title":"Integrative clustering of high-dimensional data with joint and individual clusters","author":"Hellton","year":"2016","journal-title":"Biostatistics"},{"key":"2023020113392995900_btw324-B3","author":"Jere","year":"2014"},{"key":"2023020113392995900_btw324-B4","doi-asserted-by":"crossref","first-page":"4521","DOI":"10.1039\/C5AN00706B","article-title":"Analysis of multi-source metabolomic data using joint and individual variation explained (JIVE)","volume":"140","author":"Kuligowski","year":"2015","journal-title":"Analyst"},{"key":"2023020113392995900_btw324-B5","author":"Lindstrom","year":"2013"},{"key":"2023020113392995900_btw324-B6","doi-asserted-by":"crossref","first-page":"523","DOI":"10.1214\/12-AOAS597","article-title":"Joint and individual variation explained (JIVE) for integrated analysis of multiple data types","volume":"7","author":"Lock","year":"2013","journal-title":"Ann. 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