NEW YORK, Oct. 10 (GenomeWeb News) - Affymetrix said late yesterday it has publicly released genotype data from 120,000 SNPs selected from the SNP database compiled by Perlegen Sciences, as well as from public databases.
The SNP information can be downloaded from Affymetrix's website.
The company generated this data using its GeneChip technology. An initial set of approximately 535,000 SNPs from 54 people was tested using the arrays over 8 weeks, to generate about 29 million genotypes. The company then chose the SNPs with "the best distribution across the genome and the highest accuracy and call rates," it said.
About half of the SNPs are from the Perlegen database, Stephen Fodor, Affymetrix' chairman and CEO, said in a statement." Over time, we will put all of the SNPs from the Perlegen database into the public domain while also developing products that use both these and public SNPs," Fodor said. "We believe this will aid and complement the public/private haplotype map effort led by the National Human Genome Research Institute."