SNPselector: A web tool for selecting SNPs for genetic association studies

Hong Xu, Simon G. Gregory, Elizabeth R. Hauser, Judith E. Stenger, Margaret A. Pericak-Vance, Jeffery M. Vance, Stephan Züchner, Michael A. Hauser

Research output: Contribution to journalArticlepeer-review

90 Scopus citations

Abstract

Summary: Single nucleotide polymorphisms (SNPs) are commonly used for association studies to find genes responsible for complex genetic diseases. With the recent advance of SNP technology, researchers are able to assay thousands of SNPs in a single experiment. But the process of manually choosing thousands of genotyping SNPs for tens or hundreds of genes is time consuming. We have developed a web-based program, SNPselector, to automate the process. SNPselector takes a list of gene names or a list of genomic regions as input and searches the Ensembl genes or genomic regions for available SNPs. It prioritizes these SNPs on their tagging for linkage disequilibrium, SNP allele frequencies and source, function, regulatory potential and repeat status. SNPselector outputs result in compressed Excel spreadsheet files for review by the user.

Original languageEnglish (US)
Pages (from-to)4181-4186
Number of pages6
JournalBioinformatics
Volume21
Issue number22
DOIs
StatePublished - Nov 15 2005
Externally publishedYes

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

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