annotating variants on-the-fly rather than relying on pre-calculated annotations that can be easily outdated. Table 2.Benchmark results for gene-based annotation on a computer with 3GHz Intel Xeon CPUGenomeData setNo. of variantsTimingNo. of exonic variantsExonic fraction (%)HumanAffymetrix 6.0 SNP array930 0061 m 2 s85670.92Human1000 Genomes Project CEUa9 633 1158 m 35 s53 1990.55Human1000 Genomes Project YRIa13 759 8449 m 19 s78 3980.57Human1000 Genomes Project JPT+CHBa10 970 7088 m 32 s63 7930.58HumandbSNP 13013 898 53112 m 38 s189 3831.4MousedbSNP 12814 864 8298 m 42 s157 7451.1aThe list of variants were based on 2009 April release.
