{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,20]],"date-time":"2026-02-20T15:15:31Z","timestamp":1771600531970,"version":"3.50.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2021,10,19]],"date-time":"2021-10-19T00:00:00Z","timestamp":1634601600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Editor project (Cancer Research UK","award":["C355\/A26819"],"award-info":[{"award-number":["C355\/A26819"]}]},{"name":"AECC and AIRC under the Accelerator Award Programme)","award":["PIBA_2020_1_0055"],"award-info":[{"award-number":["PIBA_2020_1_0055"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Discover is an algorithm developed to identify mutually exclusive genomic events. Its main contribution is a statistical analysis based on the Poisson\u2013Binomial (PB) distribution to take into account the mutation rate of genes and samples. Discover is very effective for identifying mutually exclusive mutations at the expense of speed in large datasets: the PB is computationally costly to estimate, and checking all the potential mutually exclusive alterations requires millions of tests.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We have implemented a new version of the package called Rediscover that implements exact and approximate computations of the PB. Rediscover exact implementation is slightly faster than Discover for large and medium-sized datasets. The approximation is 100\u20131000 times faster for them making it possible to get results in less than a minute with a standard desktop. The memory footprint is also smaller in Rediscover. The new package is available at CRAN and provides some functions to integrate its usage with other R packages such as maftools and TCGAbiolinks.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Rediscover is available at CRAN (https:\/\/cran.r-project.org\/web\/packages\/Rediscover\/index.html).<\/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\/btab709","type":"journal-article","created":{"date-parts":[[2021,10,13]],"date-time":"2021-10-13T19:30:18Z","timestamp":1634153418000},"page":"844-845","source":"Crossref","is-referenced-by-count":22,"title":["Rediscover: an R package to identify mutually exclusive mutations"],"prefix":"10.1093","volume":"38","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1588-2195","authenticated-orcid":false,"given":"Juan A","family":"Ferrer-Bonsoms","sequence":"first","affiliation":[{"name":"Department of Biomedical Engineering and Sciences, TECNUN, University of Navarra , San Sebastian, Spain"}]},{"given":"Laura","family":"Jareno","sequence":"additional","affiliation":[{"name":"Department of Biomedical Engineering and Sciences, TECNUN, University of Navarra , San Sebastian, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3274-2450","authenticated-orcid":false,"given":"Angel","family":"Rubio","sequence":"additional","affiliation":[{"name":"Department of Biomedical Engineering and Sciences, TECNUN, University of Navarra , San Sebastian, Spain"}]}],"member":"286","published-online":{"date-parts":[[2021,10,19]]},"reference":[{"key":"2023020108480865300_btab709-B1","article-title":"An approximation theorem for the Poisson binomial distribution","author":"Cam","year":"1960"},{"key":"2023020108480865300_btab709-B2","doi-asserted-by":"crossref","first-page":"261","DOI":"10.1186\/s13059-016-1114-x","article-title":"A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence","volume":"17","author":"Canisius","year":"2016","journal-title":"Genome Biol"},{"key":"2023020108480865300_btab709-B3","first-page":"411","article-title":"Fitting linear models and generalized linear models with large data sets in R","author":"Enea","year":"2009","journal-title":"Stat. 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