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PMID: 18974171 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, N.I.H., Intramural

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap.

Bioinformatics (Oxford, England) ·Vol. 24 ·No. 24 ·2008-12-15 ·Pages 2938-9

Johnson AD, Handsaker RE, Pulit SL, Nizzari MM, O'Donnell CJ, de Bakker PI

Abstract

The interpretation of genome-wide association results is confounded by linkage disequilibrium between nearby alleles. We have developed a flexible bioinformatics query tool for single-nucleotide polymorphisms (SNPs) to identify and to annotate nearby SNPs in linkage disequilibrium (proxies) based on HapMap. By offering functionality to generate graphical plots for these data, the SNAP server will facilitate interpretation and comparison of genome-wide association study results, and the design of fine-mapping experiments (by delineating genomic regions harboring associated variants and their proxies). SNAP server is available at http://www.broad.mit.edu/mpg/snap/.

MeSH Terms
Genome, Human Genome-Wide Association Study Genotype Humans Internet Linkage Disequilibrium Polymorphism, Single Nucleotide/genetics Software
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Johnson Andrew D
The Framingham Heart Study of the National Heart, Lung, and Blood Institute of the National Institutes of Health, USA.
Handsaker Robert E
Pulit Sara L
Nizzari Marcia M
O'Donnell Christopher J
de Bakker Paul I W
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9 references, click to expand
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Article Info
Journal
Bioinformatics (Oxford, England)
Abbr.
Bioinformatics
ISSN
1367-4811
DOI
10.1093/bioinformatics/btn564
Published
2008-12-15
Epub
2008-00-30
Pages
2938-9
Language
English
Region
England
NLM ID
9808944
PMCID
PMC2720775
Subset
IM
Grants
NHLBI NIH HHS · N01-HC-25195 · United States
Intramural NIH HHS · United States
NHLBI NIH HHS · N01HC65226 · United States
NHLBI NIH HHS · N01HC25195 · United States
NHLBI NIH HHS · N01-HC-65226 · United States
External Links
PubMed source DOI: 10.1093/bioinformatics/btn564 PMC Full Text View journal details
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