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Originally published as Genetics Published Articles Ahead of Print on September 15, 2006.

Genetics, Vol. 174, 1517-1528, November 2006, Copyright © 2006
doi:10.1534/genetics.106.060723

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Estimating Recombination Rates From Single-Nucleotide Polymorphisms Using Summary Statistics

Badri Padhukasahasram*,1, Jeffrey D. Wall*, Paul Marjoram{dagger} and Magnus Nordborg*

* Molecular and Computational Biology and {dagger} Biostatistics Division, Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, California 90089

1 Corresponding author: Biotechnology Building, Room 169, Cornell University, Ithaca, NY 14853. 
E-mail: pkbadri{at}yahoo.com

We describe a novel method for jointly estimating crossing-over and gene-conversion rates from population genetic data using summary statistics. The performance of our method was tested on simulated data sets and compared with the composite-likelihood method of R. R. Hudson. For several realistic parameter values, the new method performed similarly to the composite-likelihood approach for estimating crossing-over rates and better when estimating gene-conversion rates. We used our method to analyze a human data set recently genotyped by Perlegen Sciences.


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