I am working on whole genome and exome genotyping data and also need to do some analysis with the targeted genotyping data. Is there any database I can go to download these targeted capture data sets ? I have tried Illumina website, but all they have is information on targeted capture method and don't have any output data (sample data) from targeted capture.
Do you mean you want to download fastq data from Illumina exome enrichments, and from Illumina targeted sequencing, such as the TruSight capture panels?
If you register for a BaseSpace account than you can access an assortment of different datasets:
If you want the resulting genotypes (in vcf format?) then I'm not sure.