{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,7]],"date-time":"2025-11-07T09:10:37Z","timestamp":1762506637486},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"24","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015,12,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Identification of driver mutations in human diseases is often limited by cohort size and availability of appropriate statistical models. We propose a method for the systematic discovery of genetic alterations that are causal determinants of disease, by prioritizing genes upstream of functional disease drivers, within regulatory networks inferred de novo from experimental data. Here we present the implementation of Driver-gene Inference by Genetical-Genomic Information Theory as an R-system package.<\/jats:p>\n               <jats:p>Availability and implementation: The diggit package is freely available under the GPL-2 license from Bioconductor (http:\/\/www.bioconductor.org).<\/jats:p>\n               <jats:p>Contact: \u00a0ma2581@cumc.columbia.edu or ac2248@cumc.columbia.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btv499","type":"journal-article","created":{"date-parts":[[2015,9,4]],"date-time":"2015-09-04T00:33:36Z","timestamp":1441326816000},"page":"4032-4034","source":"Crossref","is-referenced-by-count":12,"title":["DIGGIT: a Bioconductor package to infer genetic variants driving cellular phenotypes"],"prefix":"10.1093","volume":"31","author":[{"given":"Mariano J.","family":"Alvarez","sequence":"first","affiliation":[{"name":"1 Department of Systems Biology and"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"James C.","family":"Chen","sequence":"additional","affiliation":[{"name":"1 Department of Systems Biology and"},{"name":"2 Department of Dermatology, Columbia University, New York, NY 10032 USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Andrea","family":"Califano","sequence":"additional","affiliation":[{"name":"1 Department of Systems Biology and"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2015,9,2]]},"reference":[{"key":"2023051307183691900_btv499-B1","doi-asserted-by":"crossref","first-page":"638","DOI":"10.1016\/j.ccr.2014.03.017","article-title":"Cross-species regulatory network analysis identifies a synergistic interaction between FOXM1 and CENPF that drives prostate cancer malignancy","volume":"25","author":"Aytes","year":"2014","journal-title":"Cancer Cell"},{"key":"2023051307183691900_btv499-B2","doi-asserted-by":"crossref","first-page":"382","DOI":"10.1038\/ng1532","article-title":"Reverse engineering of regulatory networks in human B cells","volume":"37","author":"Basso","year":"2005","journal-title":"Nat. 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