Several caveats should be mentioned. These are a) we identified a number of putative SNPs that we were unable to genotype, b) ~8% of the target sequence was refractory to sequencing and c) our genomic sequencing was not 100% sensitive as we identified a high proportion of, but not all, known variation in the region. Thus, we cannot conclude with certainty that the true functional variant did not elude us, but given that it was not captured in the 651 SNPs (de novo plus HapMap) we do have good coverage of, and that very little additional genetic information was extracted by the novel SNPs we did detect through sequencing the genomic region, this does not seem likely.
