Table 1.
Scenarios used to evaluate the traditional and weighted single-step GWAS (ssGWAS and WssGWAS, respectively) using haplotypes for yearling temperament in American Angus cattle.
| Method | Marker Information 1 | Scenario Abbreviation |
|---|---|---|
| ssGWAS | H0.15 | ssGWAS_H0.15 |
| H0.50 | ssGWAS_H0.50 | |
| H0.80 | ssGWAS_H0.80 | |
| NCSNP_H0.15 | ssGWAS_NCSNP_H0.15 | |
| NCSNP_H0.50 | ssGWAS_NCSNP_H0.50 | |
| NCSNP_H0.80 | ssGWAS_NCSNP_H0.80 | |
| WssGWAS iteration 2 (WssGWAS_2) |
H0.15 | WssGWAS_2_H0.15 |
| H0.50 | WssGWAS_2_H0.50 | |
| H0.80 | WssGWAS_2_H0.80 | |
| NCSNP_H0.15 | WssGWAS_2_NCSNP_H0.15 | |
| NCSNP_H0.50 | WssGWAS_2_NCSNP_H0.50 | |
| NCSNP_H0.80 | WssGWAS_2_NCSNP_H0.80 | |
| WssGWAS iteration 3 (WssGWAS_3) |
H0.15 | WssGWAS_3_H0.15 |
| H0.50 | WssGWAS_3_H0.50 | |
| H0.80 | WssGWAS_3_H0.80 | |
| NCSNP_H0.15 | WssGWAS_3_NCSNP_H0.15 | |
| NCSNP_H0.50 | WssGWAS_3_NCSNP_H0.50 | |
| NCSNP_H0.80 | WssGWAS_3_NCSNP_H0.80 |
1 H0.15, H0.50, and H0.80: haplotypes from blocks with linkage disequilibrium (LD) thresholds of 0.15, 0.50, and 0.80, respectively; NCSNP_H0.15, NCSNP_H0.50, and NCSNP_H0.80: non-clustered SNP and haplotypes from blocks with LD thresholds of 0.15, 0.50, and 0.80, respectively.