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Bioinformatics Advance Access originally published online on October 23, 2006
Bioinformatics 2007 23(1):129-131; doi:10.1093/bioinformatics/btl532
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© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/ by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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

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

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

*To whom correspondence should be addressed

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.

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

Contact: mng{at}math.hkbu.edu.hk

Received on May 7, 2006; revised on October 3, 2006; accepted on October 12, 2006

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