LocusZoom: regional visualization of genome-wide association scan results

Bioinformatics (Oxford, England) - Tập 26 Số 18 - Trang 2336-2337 - 2010
Randall Pruim1, Ryan Welch1, Serena Sanna1, Tanya M. Teslovich1, Peter S. Chines1, Terry P. Gliedt1, Michael Boehnke1, Gonçalo R. Abecasis1, Cristen J. Willer1
11 Department of Mathematics and Statistics, Calvin College, Grand Rapids, MI 49546, 2Department of Biostatistics and Center for Statistical Genetics, University of Michigan, 3Bioinformatics Graduate Program, The University of Michigan Medical School, Ann Arbor, MI 48109, USA, 4Istituto di Neurogenetica e Neurofarmacologia (INN), Consiglio Nazionale delle Ricerche, c/o Cittadella Universitaria di Monserrato, Monserrato, Cagliari, Italy 09042 and 5National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA

Tóm tắt

Abstract

Summary: 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:  [email protected]

Từ khóa


Tài liệu tham khảo

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Thông tin
Thông tin xuất bản

Bioinformatics (Oxford, England)

Tập 26 Số 18

2336-2337

Thông tin tác giả