SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap
Top Cited Papers
- 30 October 2008
- journal article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 24 (24) , 2938-2939
- https://doi.org/10.1093/bioinformatics/btn564
Abstract
Summary: 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). Availability: SNAP server is available at http://www.broad.mit.edu/mpg/snap/. Contact: debakker@broad.mit.eduKeywords
This publication has 9 references indexed in Scilit:
- Genome-wide association studies for complex traits: consensus, uncertainty and challengesNature Reviews Genetics, 2008
- Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetesNature Genetics, 2008
- A second generation human haplotype map of over 3.1 million SNPsNature, 2007
- A new multipoint method for genome-wide association studies by imputation of genotypesNature Genetics, 2007
- A Common Variant on Chromosome 9p21 Affects the Risk of Myocardial InfarctionScience, 2007
- A Common Allele on Chromosome 9 Associated with Coronary Heart DiseaseScience, 2007
- Genome-Wide Association Analysis Identifies Loci for Type 2 Diabetes and Triglyceride LevelsScience, 2007
- GeneCruiser: a web service for the annotation of microarray dataBioinformatics, 2005
- Haploview: analysis and visualization of LD and haplotype mapsBioinformatics, 2004