Skip to main content

Table 1 Estimated lead variants (2) associated with cattle flight time in the meta-analysis

From: Genetic control of temperament traits across species: association of autism spectrum disorder risk genes with cattle temperament

Chr bp A1/A2 Freq (A1) b (A1) P %Vga Dirb Variant type Candidate genesc
3 52,892,109 A/C 0.56 − 0.089 2 × 10−9 1.50 Intergenic BARHL2 (196 kb)
21 1,058,688 A/C 0.48 − 0.107 3 × 10−10 2.19 Intergenic MAGEL2 (274 kb), NDN (321 kb) SNRPN (1033 kb)
  1. Lead variants are obtained using clumping for all variants with P < 5 × 10−8, clumping windows of 5 Mb and r2 = 0.1
  2. a%Vg = 2*FreqA1*FreqA2*b2/Vg*100, Vg = 0.259 (TropComp2)
  3. bDirection of SNP effect in each cohort of the meta-analysis (TropComp1, Brahman, TropComp2)
  4. cProtein-coding genes within 200 kb of the clumping window. Distance from top variant in parenthesis
\