LocusZoom: regional visualization of genome-wide association scan results

Genome-wide association studies (GWAS) have revealed hundreds of loci associated with common human genetic diseases and traits. We have developed a web-based plotting tool that provides fast visual display of GWAS results in a publication-ready format. LocusZoom visually displays regional informatio...

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Podrobná bibliografie
Vydáno v:	Bioinformatics Ročník 26; číslo 18; s. 2336 - 2337
Hlavní autoři:	Pruim, Randall J., Welch, Ryan P., Sanna, Serena, Teslovich, Tanya M., Chines, Peter S., Gliedt, Terry P., Boehnke, Michael, Abecasis, Gonçalo R., Willer, Cristen J.
Médium:	Journal Article
Jazyk:	angličtina
Vydáno:	Oxford Oxford University Press 15.09.2010
Témata:	Applications Note Biological and medical sciences Computer Graphics Fundamental and applied biological sciences. Psychology General aspects Genome-Wide Association Study Humans Internet Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) Software Genome Visualization
ISSN:	1367-4803, 1367-4811, 1460-2059, 1367-4811
On-line přístup:	Získat plný text
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Popis
Shrnutí:	Genome-wide association studies (GWAS) have revealed hundreds of loci associated with common human genetic diseases and traits. We have developed a web-based plotting tool that provides fast visual display of GWAS results in a publication-ready format. LocusZoom visually displays regional information such as the strength and extent of the association signal relative to genomic position, local linkage disequilibrium (LD) and recombination patterns and the positions of genes in the region. Availability: LocusZoom can be accessed from a web interface at http://csg.sph.umich.edu/locuszoom. Users may generate a single plot using a web form, or many plots using batch mode. The software utilizes LD information from HapMap Phase II (CEU, YRI and JPT+CHB) or 1000 Genomes (CEU) and gene information from the UCSC browser, and will accept SNP identifiers in dbSNP or 1000 Genomes format. Single plots are generated in ∼20 s. Source code and associated databases are available for download and local installation, and full documentation is available online. Contact: cristen@umich.edu
Bibliografie:	The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors. ark:/67375/HXZ-WR9D4DMX-M To whom correspondence should be addressed. istex:53181865CA683FFB8881D869855273169295D1BE ArticleID:btq419 ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Associate Editor: Dmitrij Frishman
ISSN:	1367-4803 1367-4811 1460-2059 1367-4811
DOI:	10.1093/bioinformatics/btq419