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Bioinformatics Advance Access published online on January 17, 2006
Bioinformatics, doi:10.1093/bioinformatics/btk025
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© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received November 16, 2005
Revised December 20, 2005
Accepted December 23, 2005

Applications note

TAMAL: an integrated approach to choosing SNPs for genetic studies of human complex traits

Bradley M. Hemminger 1, Billy Saelim 1, and Patrick F. Sullivan 2 *

1 School of Information and Library Science, University of North Carolina at Chapel Hill, Chapel Hill NC, USA
2 Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill NC, USA; Department of Medical Epidemiology & Biostatistics, Karolinska Institutet, Stockholm, Sweden

* To whom correspondence should be addressed.
Patrick F. Sullivan, E-mail: pfsulliv{at}med.unc.edu


  Abstract

Summary: Investigators conducting studies of the molecular genetics of complex traits in humans often need rationally to select a set of single nucleotide polymorphisms (SNPs) from the hundreds or thousands available for a candidate gene. Accomplishing this requires integration of genomic data from distributed databases and is both time consuming and error-prone. We developed the TAMAL web site to help identify promising SNPs for further investigation. For a given list of genes, TAMAL identifies SNPs that meet user-specified criteria (e.g., haplotype tagging SNPs or SNP predicted to lead to amino acid changes) from current versions of online resources (i.e., HapMap, Perlegen, Affymetrix, dbSNP, and the UCSC genome browser).

Availability: TAMAL is a platform independent web-based application available free of charge at http://neoref.ils.unc.edu/tamal/.

Supplementary Information: http://neoref.ils.unc.edu/tamal/.

Associate Editor: Frank Dudbridge
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