{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,10,10]],"date-time":"2023-10-10T08:31:49Z","timestamp":1696926709167},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2427,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,2,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Often in human genetic analysis, multiple tables of single nucleotide polymorphism (SNP) statistics are shown alongside a Haploview style correlation plot. Readers are then asked to make inferences that incorporate knowledge across these multiple sets of results. To better facilitate a collective understanding of all available data, we developed a Ruby-based web application, LD-Plus, to generate figures that simultaneously display physical location of SNPs, binary SNP attributes (such as coding\/non-coding or presence on genotyping platforms), common haplotypes and their frequencies and continuously scaled values (such as Fst, minor allele frequency, genotyping efficiency or P-values), all in the context of the D\u2032 and r2 linkage disequilibrium structures. Combining these results into one comprehensive figure reduces dereferencing between figures and tables, and can provide unique insights into genetic features that are not clearly seen when results are partitioned across multiple figures and tables.<\/jats:p>\n               <jats:p>Availability: LD-Plus is freely available for non-commercial research institutions. For full details see http:\/\/chgr.mc.vanderbilt.edu\/ritchielab\/ldplus.<\/jats:p>\n               <jats:p>Contact: \u00a0ritchie@chgr.mc.vanderbilt.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp678","type":"journal-article","created":{"date-parts":[[2010,2,4]],"date-time":"2010-02-04T01:55:22Z","timestamp":1265248522000},"page":"578-579","source":"Crossref","is-referenced-by-count":7,"title":["Visualizing SNP statistics in the context of linkage disequilibrium using LD-Plus"],"prefix":"10.1093","volume":"26","author":[{"given":"William S.","family":"Bush","sequence":"first","affiliation":[{"name":"Departments of Molecular Physiology & Biophysics and Biomedical Informatics, Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN, USA"}]},{"given":"Scott M.","family":"Dudek","sequence":"additional","affiliation":[{"name":"Departments of Molecular Physiology & Biophysics and Biomedical Informatics, Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN, USA"}]},{"given":"Marylyn D.","family":"Ritchie","sequence":"additional","affiliation":[{"name":"Departments of Molecular Physiology & Biophysics and Biomedical Informatics, Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN, USA"}]}],"member":"286","published-online":{"date-parts":[[2010,2,9]]},"reference":[{"key":"2023012508022861100_B1","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1093\/bioinformatics\/bth457","article-title":"Haploview: analysis and visualization of LD and haplotype maps","volume":"21","author":"Barrett","year":"2005","journal-title":"Bioinformatics"},{"key":"2023012508022861100_B2","doi-asserted-by":"crossref","first-page":"1043","DOI":"10.2217\/pgs.09.67","article-title":"Genetic variation in the rhythmonome: ethnic variation and haplotype structure in candidate genes for arrhythmias","volume":"10","author":"Bush","year":"2009","journal-title":"Pharmacogenomics"},{"key":"2023012508022861100_B3","doi-asserted-by":"crossref","first-page":"460","DOI":"10.1038\/ng.339","article-title":"Common variants on 9q22.33 and 14q13.3 predispose to thyroid cancer in European populations","volume":"41","author":"Gudmundsson","year":"2009","journal-title":"Nat. Genet."},{"key":"2023012508022861100_B4","doi-asserted-by":"crossref","first-page":"2938","DOI":"10.1093\/bioinformatics\/btn564","article-title":"SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap","volume":"24","author":"Johnson","year":"2008","journal-title":"Bioinformatics"},{"key":"2023012508022861100_B5","doi-asserted-by":"crossref","first-page":"D773","DOI":"10.1093\/nar\/gkm966","article-title":"The UCSC Genome Browser Database: 2008 update","volume":"36","author":"Karolchik","year":"2008","journal-title":"Nucleic Acids Res."},{"key":"2023012508022861100_B6","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1159\/000106060","article-title":"Haplotype diversity in four genes (CLCNKA, CLCNKB, BSND, NEDD4L) involved in renal salt reabsorption","volume":"65","author":"Sile","year":"2008","journal-title":"Hum. Hered."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/26\/4\/578\/48854617\/bioinformatics_26_4_578.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/26\/4\/578\/48854617\/bioinformatics_26_4_578.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,25]],"date-time":"2023-01-25T08:03:27Z","timestamp":1674633807000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/26\/4\/578\/242993"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,2,9]]},"references-count":6,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2010,2,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btp678","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2010,2,15]]},"published":{"date-parts":[[2010,2,9]]}}}