mPopTag
mPopTag: The Multi-Population Tag SNP Picker
Developed by:
Zongli Xu, Norman Kaplan, and Jack A. Taylor
National Institute of Environmental Health
Division of Intramural Research
Environmental Diseases & Medicine
Epidemiology & Biostatistics Branches
The Multi-Population Tag Single Nucleotide Polymorphism (SNP) Picker (mPopTag) is a tool used to select or evaluate linkage disequilibrium (LD) tag SNPs for multiple populations. The program analyzes patterns of LD--measured by composite linkage disequilibrium (CLD) or r2--between polymorphic sites in a genome region for multiple populations. It also uses an agreedy algorithm to select a single set of near-minimum numbers of LD tag SNPs for multiple populations.
Downloads
- Linux Binary: mpoptag_linux.zip (3MB)
- Software Manual: manual.pdf (30KB)
- Source code: please contact
Credits
The mPopTag was developed in and is maintained at the NIEHS (http://www.niehs.nih.gov/) by Zongli Xu, Norman L. Kaplan and Jack A Taylor.
Reference
Xu Z, Kaplan NL, Taylor JA. Tag SNP selection for candidate gene association studies using HapMap and gene resequencing data. Eur J Hum Genet 2007 Oct;15(10):1063-70.
Installation
It can be run on Linux operating system.
Contact
- Jack A. Taylor, M.D., Ph.D. (http://www.niehs.nih.gov/research/atniehs/labs/epi/molecular/index.cfm)
-
Tel (919) 541-4631
Fax (919) 541-2511
taylor@niehs.nih.gov
- Zongli Xu, Ph.D. (http://www.niehs.nih.gov/research/atniehs/labs/epi/molecular/staff/xu/index.cfm)
-
Tel (919) 541-1677
Fax (919) 541-2511
xuz@niehs.nih.gov
