{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,9]],"date-time":"2026-07-09T13:12:26Z","timestamp":1783602746945,"version":"3.55.0"},"reference-count":22,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2016,10,12]],"date-time":"2016-10-12T00:00:00Z","timestamp":1476230400000},"content-version":"vor","delay-in-days":291,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,5,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Motivation: In order to discover quantitative trait loci, multi-dimensional genomic datasets combining DNA-seq and ChiP-\/RNA-seq require methods that rapidly correlate tens of thousands of molecular phenotypes with millions of genetic variants while appropriately controlling for multiple testing.<\/jats:p>\n                  <jats:p>Results: We have developed FastQTL, a method that implements a popular cis-QTL mapping strategy in a user- and cluster-friendly tool. FastQTL also proposes an efficient permutation procedure to control for multiple testing. The outcome of permutations is modeled using beta distributions trained from a few permutations and from which adjusted P-values can be estimated at any level of significance with little computational cost. The Geuvadis &amp; GTEx pilot datasets can be now easily analyzed an order of magnitude faster than previous approaches.<\/jats:p>\n                  <jats:p>Availability and implementation: Source code, binaries and comprehensive documentation of FastQTL are freely available to download at http:\/\/fastqtl.sourceforge.net\/<\/jats:p>\n                  <jats:p>Contact: \u00a0emmanouil.dermitzakis@unige.ch or olivier.delaneau@unige.ch<\/jats:p>\n                  <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btv722","type":"journal-article","created":{"date-parts":[[2015,12,26]],"date-time":"2015-12-26T20:18:54Z","timestamp":1451161134000},"page":"1479-1485","source":"Crossref","is-referenced-by-count":572,"title":["Fast and efficient QTL mapper for thousands of molecular phenotypes"],"prefix":"10.1093","volume":"32","author":[{"given":"Halit","family":"Ongen","sequence":"first","affiliation":[{"name":"1 Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland"},{"name":"2 Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, Geneva, 1211, Switzerland"},{"name":"3 Swiss Institute of Bioinformatics, Geneva, 1211, Switzerland and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alfonso","family":"Buil","sequence":"additional","affiliation":[{"name":"1 Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland"},{"name":"2 Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, Geneva, 1211, Switzerland"},{"name":"3 Swiss Institute of Bioinformatics, Geneva, 1211, Switzerland and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew Anand","family":"Brown","sequence":"additional","affiliation":[{"name":"1 Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland"},{"name":"2 Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, Geneva, 1211, Switzerland"},{"name":"3 Swiss Institute of Bioinformatics, Geneva, 1211, Switzerland and"},{"name":"4 NORMENT, KG Jebsen Centre for Psychosis Research, Institute of Clinical Medicine, University of Oslo, Norway"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emmanouil T.","family":"Dermitzakis","sequence":"additional","affiliation":[{"name":"1 Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland"},{"name":"2 Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, Geneva, 1211, Switzerland"},{"name":"3 Swiss Institute of Bioinformatics, Geneva, 1211, Switzerland and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Olivier","family":"Delaneau","sequence":"additional","affiliation":[{"name":"1 Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland"},{"name":"2 Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, Geneva, 1211, Switzerland"},{"name":"3 Swiss Institute of Bioinformatics, Geneva, 1211, Switzerland and"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2015,12,26]]},"reference":[{"key":"2023020112243786800_btv722-B1","doi-asserted-by":"crossref","first-page":"1294","DOI":"10.1093\/bioinformatics\/btm108","article-title":"GenABEL: an R library for genome-wide association analysis","volume":"23","author":"Aulchenko","year":"2007","journal-title":"Bioinformatics"},{"key":"2023020112243786800_btv722-B2","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the false discovery rate: a practical and powerful approach to multiple testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J. 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