Table 3 Characterization of genomic regions (2nd to 3rd columns in GRCh38) by each capture kit
From: Human whole-exome genotype data for Alzheimer’s disease
Capture kit info | Number of original capture regions (various genome builds) | Number of lifted-over capture regions (GRCh38) | Number of bp | % of capture regions that are Ensembl v94 exons | % of Ensembl v94 exons (with flanking 7bp) that are captured |
|---|---|---|---|---|---|
Agilent WES v3 capture region | 206,773 | 206,445 | 52,941,356 | 92.54 | 95.13 |
Agilent WES v4 capture region | 185,638 | 185,600 | 53,791,945 | 92.11 | 94.14 |
Agilent WES v5 capture region | 230,418 | 230,348 | 53,309,273 | 89.97 | 96.27 |
Agilent WES v6 capture region | 232,406 | 231,980 | 61,549,327 | 87.78 | 95.88 |
IDT xGen Exome Whole-Exome Research Panel v1.0 w-Custom Spike-In Baits | 203,403 | 203,310 | 39,968,963 | 94.05 | 95.20 |
Illumina rapid capture exome (ICE) kit | 217,234 | 216,807 | 40,653,755 | 91.17 | 98.03 |
Nimblegen VCRome sequencing w-Custom Spike-In Baits | 244,944 | 244,828 | 41,708,836 | 96.26 | 93.63 |
Roche Nimblegen VCRome V2.1 | 197,542 | 195,167 | 37,951,907 | 96.05 | 94.39 |
Roche SeqCap EZ Exome Probes v2.0 Target Enrichment Probes | 259,651 | 244,490 | 47,294,869 | 94.68 | 92.34 |
Roche SeqCap EZ Exome Probes v3.0 Target Enrichment Probes | 368,146 | 367,730 | 69,167,416 | 83.01 | 97.14 |
