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Table 2 Estimated lead variants within ± 100 kb of ASD genes 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
2 113,546,307 T/C 0.222 − 0.082 2.3 × 10−5 0.90 Intergenic CUL3 (59 kb)
21 4,115,188 A/G 0.344 − 0.072 8.0 × 10−6 0.90 -+- Intergenic GABRB3 (28 kb)
  1. Lead variants are obtained using clumping for all variants with P < 1 × 10−4, 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
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