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Table 1 Number of informative markers for heat tolerance defined as ‘top SNPs’ selected from single-trait GWAS and multi-trait meta-analyses of heat tolerance slope traits of Holstein discovery cow set (N = 20,623)

From: Functionally prioritised whole-genome sequence variants improve the accuracy of genomic prediction for heat tolerance

Trait ‘Top SNPs’ (− log10(p-value) ≥ 2) ‘Top SNPs’ (− log10(p-value) ≥ 3)
HTMYslope 9207 (51,750) 1654 (44,219)
HTFYslope 9352 (51,894) 1708 (44,277)
HTPYslope 9633 (52,168) 1624 (44,190)
Meta-GWAS 9090 (51,636) 2365 (44,929)
  1. Markers were selected based on the GWAS cut-off thresholds of − log10(p-value) ≥ 2 and − log10(p-value) ≥ 3. The values in brackets are the final number of SNPs after adding selected ‘top SNPs’ to the 50k SNP data used in the BayesRC analyses (i.e., 42,572 SNPs + top SNPs). Traits are defined as heat tolerance milk (HTMYslope), fat (HTFYslope) and protein (HTPYslope) yield slope traits