Changes

== Coding Variants  ==

== Coding Variants  ==

Design criteria included a requirement for an assay design score >= 0.50, a primer that didn't overlap a nearby variant with minor allele count >100, a primer that didn't map with 0, 1 or 2 mismatches to other genomic locations. Assay design failures appeared to be largely independent of frequency.  

Design criteria included a requirement for an assay design score >= 0.50, a primer that didn't overlap a nearby variant with minor allele count >100, a primer that didn't map with 0, 1 or 2 mismatches to other genomic locations. Whenever possible, we favored assays that extended into exons (rather than into introns) so as to maximize the utility of these arrays when applied to RNA samples. Assay design failures appeared to be largely independent of frequency.  

In the Illumina platform, 243,094 of the original set of 275,165 coding variants (non-synonymous, stop and splice) passed assay design criteria. We expect that 80-90% of the variants that pass design criteria will ultimately be included in genotyping arrays.  

In the Illumina platform, 243,094 of the original set of 275,165 coding variants (non-synonymous, stop and splice) passed assay design criteria. We expect that 80-90% of the variants that pass design criteria will ultimately be included in genotyping arrays.

== Assay Design Rates  ==

== Assay Design Rates  ==