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Bioinformatics Advance Access published online on October 23, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl532
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© 2006 The Author(s)
Received May 7, 2006
Revised October 3, 2006
Accepted October 12, 2006

Applications note

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

P. C. Sham 1 *, S. I. Ao 2, J. S. H. Kwan 3, P. Kao 4, F. Cheung 4, P. Y. Fong 4, and M. K. Ng 5

1 Department of Psychiatry, University of Hong Kong, Hong Kong; Genome Research Centre, University of Hong Kong, Hong Kong; SGDP Centre, Institute of Psychiatry, King's College London, UK
2 Department of Mathematics, University of Hong Kong, Hong Kong
3 Department of Psychiatry, University of Hong Kong, Hong Kong; Genome Research Centre, University of Hong Kong, Hong Kong
4 Genome Research Centre, University of Hong Kong, Hong Kong
5 Department of Mathematics, Hong Kong Baptist University, Hong Kong


  Abstract

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

Associate Editor: Charlie Hodgman
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