{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,10]],"date-time":"2026-03-10T02:03:50Z","timestamp":1773108230705,"version":"3.50.1"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"23","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006,12,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Chromosomal translocations are common in cancer, and in some cases may be causal in the progression of the disease. Using microarrays, in which the expression of thousands of genes are simultaneously measured, could potentially allow one to detect recurrent translocations for a particular cancer type. Standard statistical tests, such as the t-test are not suited for detecting these translocations, but a simple test based on robust centering and scaling of the data to help detect outlier samples, followed by a search for pairs of samples with mutually exclusive outliers, may be used to find genes involved in recurrent translocations. We have implemented this method, termed Cancer Outlier Profile Analysis (COPA) in an R package (that we call the copa package), and show its applicability on a publicly available dataset.<\/jats:p>\n               <jats:p>Availability: \u00a0<\/jats:p>\n               <jats:p>Contact: \u00a0jmacdon@med.umich.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btl433","type":"journal-article","created":{"date-parts":[[2006,8,9]],"date-time":"2006-08-09T03:27:36Z","timestamp":1155094056000},"page":"2950-2951","source":"Crossref","is-referenced-by-count":97,"title":["COPA\u2014cancer outlier profile analysis"],"prefix":"10.1093","volume":"22","author":[{"given":"James W.","family":"MacDonald","sequence":"first","affiliation":[{"name":"University of Michigan Cancer Center, Ann Arbor 1 \u00a0 1 \u00a0 \u00a0 MI, USA"}]},{"given":"Debashis","family":"Ghosh","sequence":"additional","affiliation":[{"name":"Department of Biostatistics, University of Michigan 2 \u00a0 2 \u00a0 \u00a0 Ann Arbor, MI, USA"}]}],"member":"286","published-online":{"date-parts":[[2006,8,7]]},"reference":[{"key":"2023012409391730100_b1","doi-asserted-by":"crossref","first-page":"1546","DOI":"10.1158\/0008-5472.CAN-03-2876","article-title":"Genetics and cytogenetics of multiple myeloma: a workshop report","volume":"64","author":"Fonseca","year":"2004","journal-title":"Cancer Res."},{"key":"2023012409391730100_b2","doi-asserted-by":"crossref","first-page":"R80","DOI":"10.1186\/gb-2004-5-10-r80","article-title":"Bioconductor: open software development for computational biology and bioinformatics","volume":"5","author":"Gentleman","year":"2004","journal-title":"Genom. 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