{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,6]],"date-time":"2026-05-06T02:38:38Z","timestamp":1778035118200,"version":"3.51.4"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"12","license":[{"start":{"date-parts":[[2017,2,10]],"date-time":"2017-02-10T00:00:00Z","timestamp":1486684800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"funder":[{"name":"Grupo de Enfoque en Bioinformatica from Tecnol\u00f3gico de Monterrey, and from CONACyT"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,6,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>The association of genomic alterations to outcomes in cancer is affected by a problem of unbalanced groups generated by the low frequency of alterations. For this, an R package (VALORATE) that estimates the null distribution and the P-value of the log-rank based on a recent reformulation is presented. For a given number of alterations that define the size of survival groups, the log-rank density is estimated by a weighted sum of conditional distributions depending on a co-occurrence term of mutations and events. The estimations are accurately accelerated by sampling across co-occurrences allowing the analysis of large genomic datasets in few minutes. In conclusion, the proposed VALORATE R package is a valuable tool for survival analysis.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and Implementation<\/jats:title>\n                  <jats:p>The R package is available in CRAN at https:\/\/cran.r-project.org and in http:\/\/bioinformatica.mty.itesm.mx\/valorateR.<\/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\/btx080","type":"journal-article","created":{"date-parts":[[2017,2,10]],"date-time":"2017-02-10T10:41:35Z","timestamp":1486723295000},"page":"1900-1901","source":"Crossref","is-referenced-by-count":10,"title":["VALORATE: fast and accurate log-rank test in balanced and unbalanced comparisons of survival curves and cancer genomics"],"prefix":"10.1093","volume":"33","author":[{"given":"Victor","family":"Trevi\u00f1o","sequence":"first","affiliation":[{"name":"C\u00e1tedra de Bioinform\u00e1tica, Escuela de Medicina, Tecnol\u00f3gico de Monterrey, Monterrey N.L., M\u00e9xico"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jose","family":"Tamez-Pena","sequence":"additional","affiliation":[{"name":"C\u00e1tedra de Bioinform\u00e1tica, Escuela de Medicina, Tecnol\u00f3gico de Monterrey, Monterrey N.L., M\u00e9xico"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2017,2,10]]},"reference":[{"key":"2023020205473524000_btx080-B1","author":"Collett","year":"2003"},{"key":"2023020205473524000_btx080-B2","doi-asserted-by":"crossref","first-page":"675.","DOI":"10.2307\/2531095","article-title":"Small-sample properties of censored-data rank tests","volume":"39","author":"Kellerer","year":"1983","journal-title":"Biometrics"},{"key":"2023020205473524000_btx080-B3","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-4419-6646-9","volume-title":"Survival Analysis \u2013 A Self-Learning Text","author":"Kleinbaum","year":"2012","edition":"3rd"},{"key":"2023020205473524000_btx080-B4","doi-asserted-by":"crossref","first-page":"495","DOI":"10.1038\/nature12912","article-title":"Discovery and saturation analysis of cancer genes across 21 tumour types","volume":"505","author":"Lawrence","year":"2014","journal-title":"Nature"},{"key":"2023020205473524000_btx080-B5","author":"Trevino","year":"2017"},{"key":"2023020205473524000_btx080-B6","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1371\/journal.pcbi.1004071","article-title":"Accurate computation of survival statistics in genome-wide studies","volume":"11","author":"Vandin","year":"2015","journal-title":"PLoS Comput. Biol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/33\/12\/1900\/49039762\/bioinformatics_33_12_1900.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/33\/12\/1900\/49039762\/bioinformatics_33_12_1900.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T05:48:31Z","timestamp":1675316911000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/33\/12\/1900\/2982055"}},"subtitle":[],"editor":[{"given":"Oliver","family":"Stegle","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2017,2,10]]},"references-count":6,"journal-issue":{"issue":"12","published-print":{"date-parts":[[2017,6,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btx080","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2017,6,15]]},"published":{"date-parts":[[2017,2,10]]}}}