Table 3 Number (Nb) of SNPs shared with the HD chip, for different SNP chips
SNP chip1 | Label | Nb common SNPs with HD | Nb common SNPs after QC2 |
|---|---|---|---|
Illumina® BovineHD | HD | 777962 | 439595 |
Illumina® BovineLD | 7 K | 6637 | 4086 |
Illumina® Bovine SNP50 v2 | 50 K | 49345 | 21014 |
GeneSeek® Genomic Profiler 20 K - Indicine | GGP20Ki | 19493 | 13450 |
GeneSeek® Genomic Profiler 75 K - Indicine | GGP75Ki | 73941 | 56169 |
Customized 15K_e | 15K_e | 15144 | 15144 |
Customized 15K_em | 15K_em | 15173 | 15173 |
Customized 15K_el | 15K_el | 15173 | 15173 |
Customized 15K_eml | 15K_eml | 15173 | 15173 |
Customized 11K_eml add-on 7 K | 11a7 K | 17841 | 15290 |
Customized 17 K_eml add-on 7 K | 17a7 K | 24121 | 21570 |
Customized 27 K_eml add-on 7 K | 27a7 K | 33942 | 31391 |
Customized 48K_eml add-on 7 K | 48a7 K | 55141 | 52590 |