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Published online before print March 18, 2008, 10.1101/gr.073148.107
Genome Res. 18:661-667, 2008
©2008 by Cold Spring Harbor Laboratory Press; ISSN 1088-9051/08 $5.00
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RECOMB Special/Methods

Panel construction for mapping in admixed populations via expected mutual information

Sivan Bercovici1,4, Dan Geiger1, Liran Shlush2, Karl Skorecki2, and Alan Templeton3

1 Computer Science Department, Technion, Haifa 32000, Israel; 2 Faculty of Medicine, Technion, Haifa 31096, Israel; 3 Department of Biology, Washington University, St. Louis, Missouri 63130, USA

Mapping by admixture linkage disequilibrium (MALD) is an economical and powerful approach for the identification of genomic regions harboring disease susceptibility genes in recently admixed populations. We develop an information-theory-based measure, called expected mutual information (EMI), which computes the impact of a set of markers on the ability to infer ancestry at each chromosomal location. We then present a simple and effective algorithm for the selection of panels that strives to maximize the EMI score. Finally, we demonstrate via well-established simulation tools that our panels provide more power and accuracy for inferring disease gene loci via the MALD method in comparison to previous methods.

4 Corresponding author.

E-mail sberco{at}cs.technion.ac.il; fax 972-4-8293900.

Article published online before print. Article and publication date are at http://www.genome.org/cgi/doi/10.1101/gr.073148.107.


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