The Affymetrix 10K genome-scan data set from the Autism Genome Project is available in the NIH GEO repository (open access):
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6754
"This is a large linkage study undertaken by The Autism Genome Project (AGP) Consortium to search for candidate genes underlying the etiology of autism. 1168 Muliplex families (= 2 affected individuals) consisting of 7600 individuals were genotyped using Affymetrix 10K whole genome mapping arrays. Copy number analysis was performed using DNA Chip (dChip) Analyzer."
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