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. 2004 Nov;1(2):109-11.
doi: 10.1038/nmeth718.

Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays

Hajime Matsuzaki  1 , Shoulian Dong, Halina Loi, Xiaojun Di, Guoying Liu, Earl Hubbell, Jane Law, Tam Berntsen, Monica Chadha, Henry Hui, Geoffrey Yang, Giulia C Kennedy, Teresa A Webster, Simon Cawley, P Sean Walsh, Keith W Jones, Stephen P A Fodor, Rui Mei
Affiliations

Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays

Hajime Matsuzaki et al. Nat Methods. 2004 Nov.

Abstract

We present a genotyping method for simultaneously scoring 116,204 SNPs using oligonucleotide arrays. At call rates >99%, reproducibility is >99.97% and accuracy, as measured by inheritance in trios and concordance with the HapMap Project, is >99.7%. Average intermarker distance is 23.6 kb, and 92% of the genome is within 100 kb of a SNP marker. Average heterozygosity is 0.30, with 105,511 SNPs having minor allele frequencies >5%.

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  • SNPs made routine.
    Broman KW, Feingold E. Broman KW, et al. Nat Methods. 2004 Nov;1(2):104-5. doi: 10.1038/nmeth1104-104. Nat Methods. 2004. PMID: 15782170 No abstract available.

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