{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,5,17]],"date-time":"2024-05-17T13:40:18Z","timestamp":1715953218962},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"17","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,9,1]]},"abstract":"<jats:p>Motivation: Recently, De Neve et al. proposed a modification of the Wilcoxon\u2013Mann\u2013Whitney (WMW) test for assessing differential expression based on RT-qPCR data. Their test, referred to as the unified WMW (uWMW) test, incorporates a robust and intuitive normalization and quantifies the probability that the expression from one treatment group exceeds the expression from another treatment group. However, no software package for this test was available yet.<\/jats:p>\n               <jats:p>Results: We have developed a Bioconductor package for analyzing RT-qPCR data with the uWMW test. The package also provides graphical tools for visualizing the effect sizes.<\/jats:p>\n               <jats:p>Availability and implementation: The unifiedWMWqPCR package and its user documentation can be obtained through Bioconductor.<\/jats:p>\n               <jats:p>Contact: \u00a0JanR.DeNeve@UGent.be<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu313","type":"journal-article","created":{"date-parts":[[2014,5,4]],"date-time":"2014-05-04T00:24:55Z","timestamp":1399163095000},"page":"2494-2495","source":"Crossref","is-referenced-by-count":4,"title":["unifiedWMWqPCR: the unified Wilcoxon\u2013Mann\u2013Whitney test for analyzing RT-qPCR data in R"],"prefix":"10.1093","volume":"30","author":[{"given":"Jan","family":"De Neve","sequence":"first","affiliation":[{"name":"1 \u00a01Department of Mathematical Modelling, Statistics and Bioinformatics, 2Department of Applied Mathematics, Computer Science and Statistics, Ghent University, B-9000 Gent, Belgium and 3National Institute for Applied Statistics Research Australia (NIASRA), School of Mathematics and Applied Statistics, University of Wollongong, NSW 2522, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Joris","family":"Meys","sequence":"additional","affiliation":[{"name":"1 \u00a01Department of Mathematical Modelling, Statistics and Bioinformatics, 2Department of Applied Mathematics, Computer Science and Statistics, Ghent University, B-9000 Gent, Belgium and 3National Institute for Applied Statistics Research Australia (NIASRA), School of Mathematics and Applied Statistics, University of Wollongong, NSW 2522, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jean\u2013Pierre","family":"Ottoy","sequence":"additional","affiliation":[{"name":"1 \u00a01Department of Mathematical Modelling, Statistics and Bioinformatics, 2Department of Applied Mathematics, Computer Science and Statistics, Ghent University, B-9000 Gent, Belgium and 3National Institute for Applied Statistics Research Australia (NIASRA), School of Mathematics and Applied Statistics, University of Wollongong, NSW 2522, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lieven","family":"Clement","sequence":"additional","affiliation":[{"name":"1 \u00a01Department of Mathematical Modelling, Statistics and Bioinformatics, 2Department of Applied Mathematics, Computer Science and Statistics, Ghent University, B-9000 Gent, Belgium and 3National Institute for Applied Statistics Research Australia (NIASRA), School of Mathematics and Applied Statistics, University of Wollongong, NSW 2522, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Olivier","family":"Thas","sequence":"additional","affiliation":[{"name":"1 \u00a01Department of Mathematical Modelling, Statistics and Bioinformatics, 2Department of Applied Mathematics, Computer Science and Statistics, Ghent University, B-9000 Gent, Belgium and 3National Institute for Applied Statistics Research Australia (NIASRA), School of Mathematics and Applied Statistics, University of Wollongong, NSW 2522, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2014,5,2]]},"reference":[{"key":"2023012711530811200_btu313-B1","doi-asserted-by":"crossref","first-page":"333","DOI":"10.1515\/sagmb-2012-0003","article-title":"An extension of the Wilcoxon-Mann-Whitney test for analyzing RT-qPCR data","volume":"12","author":"De Neve","year":"2013","journal-title":"Stat. Appl. Genet. Mol. Biol."},{"key":"2023012711530811200_btu313-B2","doi-asserted-by":"crossref","first-page":"3325","DOI":"10.1093\/bioinformatics\/btp578","article-title":"HTqPCR: high-throughput analysis and visualization of quantitative real-time PCR data in R","volume":"25","author":"Dvinge","year":"2009","journal-title":"Bioinformatics"},{"key":"2023012711530811200_btu313-B3","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":"Genome Biol."},{"key":"2023012711530811200_btu313-B4","volume-title":"SLqPCR: Functions For Analysis of Real-Time Quantitative PCR Data at SIRS-Lab GmbH","author":"Kohl","year":"2007"},{"key":"2023012711530811200_btu313-B5","doi-asserted-by":"crossref","first-page":"R64","DOI":"10.1186\/gb-2009-10-6-r64","article-title":"A novel and universal method for microRNA RT-qPCR data normalization","volume":"10","author":"Mestdagh","year":"2009","journal-title":"Genome Biol."},{"key":"2023012711530811200_btu313-B6","volume-title":"R: A Language and Environment for Statistical Computing","author":"R Core Team","year":"2013"},{"key":"2023012711530811200_btu313-B7","doi-asserted-by":"crossref","first-page":"623","DOI":"10.1111\/j.1467-9868.2011.01020.x","article-title":"Probabilistic index models","volume":"74","author":"Thas","year":"2012","journal-title":"J. Roy. Stat. Soc. B Methdol."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/17\/2494\/48927608\/bioinformatics_30_17_2494.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/17\/2494\/48927608\/bioinformatics_30_17_2494.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,27]],"date-time":"2023-01-27T12:17:57Z","timestamp":1674821877000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/30\/17\/2494\/2748173"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,5,2]]},"references-count":7,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2014,9,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btu313","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,5,2]]}}}