Additional file 4: Fig. S1. of Candidate genes for male and female reproductive traits in Canchim beef cattle

Linkage disequilibrium for scrotal circumference at 420 d of age on chromosome 5. Fig. S2. Linkage disequilibrium for scrotal circumference at 420 d of age on chromosome 9. Fig. S3. Linkage disequilibrium for scrotal circumference at 420 d of age on chromosome 13. Fig. S4. Linkage disequilibrium for scrotal circumference at 420 d of age on chromosome 14. Fig. S5. Linkage disequilibrium for scrotal circumference at 420 d of age on chromosome 18. Fig. S6. Linkage disequilibrium for scrotal circumference at 420 d of age on chromosome 21. (ZIP 1985 kb

Additional file 1: of Candidate genes for male and female reproductive traits in Canchim beef cattle

Significantly associated single nucleotide polymorphism (SNP) with scrotal circumference at 420 days of age (SC420) after Bonferroni (B) and false discovery rate (FDR) correction at a chromosome-wise (CW) and genome-wide (GW) level. (DOCX 95 kb

Additional file 1: of Strategies for genotype imputation in composite beef cattle

Average linkage disequilibrium (r2) by chromosome between adjacent markers

Additional file 2: of Candidate genes for male and female reproductive traits in Canchim beef cattle

Genome-wide (in bold) and chromosome-wise associations for scrotal circumference at 420 days of age. Gene symbols, SNP reference number, and chromosomes (Chr) and positions (Pos, in megabase) were obtained from NCBI website. Distances to gene (kilobase) are presented from 5′ to gene and 3′ to gene directions. If distance equals zero (0.00), the SNP is on intragenic region. P-values are presented as the minimum (Min) and maximum (Max) significance obtained from the generalized quasi-likelihood method. (DOCX 34 kb

Additional file 14: of Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits

Top ten transcription factor binding sites (TFBSs) over-represented in promoter sequence of genes that were associated with RUNX1T1. (XLSX 54 kb

Additional file 10: of Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits

R-squared values of linkage disequilibrium between each pair of hotspot eQTLs. (XLSX 54 kb

Additional file 5: of Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits

Variant effect annotation of cis-eQTLs by VEP tool. (XLSX 212 kb

Additional file 12: of Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits

Biological processes identified using the list of genes harbored within 2 Mb cis (A), trans (B) and hotspot (C) eQTL regions as the input gene list file. The values shown in the pie chart are the percentage of genes classified to each GO term over the total number of genes in the list used. (DOCX 599 kb

Additional file 13: of Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits

Top ten transcription factor binding sites (TFBSs) over-represented in promoter sequence of genes that were associated with EGR4. (XLSX 49 kb

Additional file 6: of Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits

Variant effect annotation of trans-eQTLs by VEP tool. (XLSX 262 kb