I want to do some SNP calls from exome sequencing data and I found really good documentation in seqanswer. I have one question about the step for quality score recalibration in GATK (http://seqanswers.com/wiki/How-to/exome_analysis#Quality_score_recalibration) which use dbSNP. From the tutorial, it shows the data from UCSC. Currently, I use ensemble GRCh38 for my genome reference so I have question about that. Can I use UCSC dbSNP for my aligned to Ensemble data? I also check Ensemble FTP and found this link ftp://ftp.ensembl.org/pub/release-79/variation/vcf/homo_sapiens/ and ftp://ftp.ensembl.org/pub/release-79/variation/gvf/homo_sapiens/. So, which one I should use because the tutorial use txt file from UCSC (I checked the UCSC the filetype still txt). Thank you for your answer.