Table 2 Number of SNPs identified at a p value of < 1E–05 (significant), and false discovery rate (FDR < 0.10) for QTL discovery cows (N = 29,107) based on 15 million imputed-whole genome sequence variants.

From: New loci and neuronal pathways for resilience to heat stress in cattle

 

Single-trait GWAS for intercept traits

Single-trait GWAS for slope traits

Multi-trait meta-analysisa

MYint

FYint

PYint

HTMYslope

HTFYslope

HTPYslope

Meta intercept

Meta slope

Significant (p < 1E–05)

9344 [72]

7844 [28]

4195 [49]

6061 [37]

8684 [21]

2998 [30]

51,568 [100]

40,220 [65]

FDR < 0.10

16,469 [188] (p = 1E–04)

11,469 [98] (p = 7E–05)

5285 [78] (p = 3E–05)

9172 [109] (p = 6E–05)

12,619 [98] (p = 8E–05)

3310 [51] (p = 2E–05)

108,934 [347] (p = 7E–04)

77,499 [293] (p = 5E–04)

  1. MYint, Milk yield intercept; FYint, Fat yield intercept; PYint, protein yield intercept; HTMYslope, heat tolerance milk yield slope; HTFYslope, heat tolerance fat yield slope; HTPYslope, heat tolerance protein yield slope.
  2. aMulti-trait meta-analysis of single-trait GWAS was performed for intercept and slope traits following21. Values in square brackets are the number of lead SNPs defined as the top significant SNP within 5 Mb non-overlapping windows across the chromosome. The FDR was calculated following the method described by21, where the p value in the brackets represents the cut-off threshold equivalent to FDR < 0.10 for each trait.
Back to article page