We have a GWAS from case/control run on exomechip.
We also have 8 families (not necessarily trios) with affected and unaffected members whole genome sequenced. This is a common disease more prevalent in this ethnic group.
I am hoping to use this familial study as a filter for the exomechip variants before replicating in other in dependent. Iam currently thinking of ways to use this filter - however aim a little concerned that the disease does not have 100% penetrance but sometimes skips a generation and shows up in the next.
Any suggestion how to effectively use the filter or any paper?
Thanks so much!! Mamta