Abstract:
:Robust estimation of allele frequencies in pools of DNA has the potential to reduce genotyping costs and/or increase the number of individuals contributing to a study where hundreds of thousands of genetic markers need to be genotyped in very large populations sample sets, such as genome wide association studies. In order to make accurate allele frequency estimations from pooled samples a correction for unequal allele representation must be applied. We have developed the polynomial based probe specific correction (PPC) which is a novel correction algorithm for accurate estimation of allele frequencies in data from high-density microarrays. This algorithm was validated through comparison of allele frequencies from a set of 10 individually genotyped DNA's and frequencies estimated from pools of these 10 DNAs using GeneChip 10K Mapping Xba 131 arrays. Our results demonstrate that when using the PPC to correct for allelic biases the accuracy of the allele frequency estimates increases dramatically.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Brohede J,Dunne R,McKay JD,Hannan GNdoi
10.1093/nar/gni142keywords:
subject
Has Abstractpub_date
2005-09-30 00:00:00pages
e142issue
17eissn
0305-1048issn
1362-4962pii
33/17/e142journal_volume
33pub_type
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