Additional file 3 of Selective sweeps for mutations increasing height impede identification of causative mutations for fertility and other correlated traits in cattle

Additional file 3: Table S1. Most associated Single Nucleotide Polymorphism (SNP) per chromosome for each trait, as identified through single-trait GWAS analysis. Table S2. Most significant Single Nucleotide Polymorphism (SNP) positions per chromosome identified through multi-trait GWAS (M-GWAS) analysis (p-value < 1 × 10⁻⁹), along with the corresponding signed t-values (calculated as effect size divided by standard error) from single-trait GWAS analyses. Table S3. Significant Single Nucleotide Polymorphisms (SNPs) associated with gene expression (Forutan et al., 2024) and studied traits (i.e. Height, BCS, Weight, Heifer puberty), along with their potential regulatory effects on nearby genes. Table S4. The correlation between candidate quantitative trait loci (QTLs) across four traits including, body condition score (BCS), weight, height, and heifer puberty. The correlation were calculated based on SNP effect size obtained from single-trait GWAS analysis for each trait. Table S5. Effects of the candidate quantitative trait loci (QTLs) on four different traits as estimated from the original single-trait genome-wide association study (GWAS). Table S6. Pearson Correlation between each pair of traits calculated over the effects of nine candidate quantitative trait loci (QTLs) located on chromosomes 5, 6, and 14, estimated using single-trait GWAS analysis.