Combining functional and linkage disequilibrium information in the selection of tag SNPs

P C Sham; S I Ao; J S H Kwan; P Kao; F Cheung; P Y Fong; M K Ng

doi:10.1093/bioinformatics/btl532

Combining functional and linkage disequilibrium information in the selection of tag SNPs

Bioinformatics. 2007 Jan 1;23(1):129-31. doi: 10.1093/bioinformatics/btl532. Epub 2006 Oct 23.

Authors

P C Sham¹, S I Ao, J S H Kwan, P Kao, F Cheung, P Y Fong, M K Ng

Affiliation

¹ Department of Psychiatry, Institute of Psychiatry, King's College London, UK.

PMID: 17060359
DOI: 10.1093/bioinformatics/btl532

Abstract

We have developed an online program, WCLUSTAG, for tag SNP selection that allows the user to specify variable tagging thresholds for different SNPs. Tag SNPs are selected such that a SNP with user-specified tagging threshold C will have a minimum R2 of C with at least one tag SNP. This flexible feature is useful for researchers who wish to prioritize genomic regions or SNPs in an association study.

Availability: The online WCLUSTAG program is available at http://bioinfo.hku.hk/wclustag/

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Algorithms
Chromosome Mapping / methods
Cluster Analysis
Genetic Markers
Internet*
Linkage Disequilibrium*
Polymorphism, Single Nucleotide / genetics*
Sequence Tagged Sites
Software*
User-Computer Interface*

Substances

Genetic Markers

Grants and funding

EY-12562/EY/NEI NIH HHS/United States