Table 2.

Population Frequency Filtering of Candidate List from Exome Sequencing

Filename	dbSNP version	Heterozygosity cutoff	Starting variants (full candidate variant list)	Post-filtering variants
dbSNP131_1percent.BED	131	1%	116,837	56,452
dbSNP132_0.5percent.BED*	132	0.5%	116,837	53,514
dbSNP132_1percent.BED*	132	1%	116,837	53,762
dbSNP132_2percent.BED*	132	2%	116,837	54,267
dbSNP132_5percent.BED*	132	5%	116,837	56,126

^*Only includes HapMap and 1000 Genomes Project data, and only uniquely mapping sites

Note that filtration numbers are all in the same order of magnitude, suggesting that the majority of the excluded SNPs are relatively common and appear in all of the filters. An additional ~3000 SNPs were filtered out by updating the filter from db131 to db132 highlighting the fact that the databases are significantly updated between releases.