Additional file 1 of Merging metabolomics and genomics provides a catalog of genetic factors that influence molecular phenotypes in pigs linking relevant metabolic pathways

Additional file 1: Table S1. Metabolites included in the study. Summary statistics of metabolite levels for the Large White and Duroc pig populations are provided. Table S2. List of the components of the basic diet for the piglets involved in the nutrigenetic longitudinal study. Table S3. Analyzed composition of the basic diet for the piglets involved in the nutrigenetic longitudinal study. Table S8. Narrow sense heritability (h2P) and genomic heritability (h2SNP) of the metabolite level. Description: Estimates are provided for the Large White and Duroc pig populations. Negative estimates are not reported. Table S9. All genetic association signals obtained in the Large White and Duroc pig populations. Description: Results include the study of both single metabolites and metabolite ratios. Table S10. All genetic association signals obtained in the meta-analyses. Description: Results include the study of both single metabolites and metabolite ratios. Table S11. Complete list of mQTL identified in pigs and comparative analysis of mQTL between pigs and humans. Table S12. Extended information obtained from GWAS Catalog of mQTL identified in humans. Table S14. Genetic variants identified from whole-genome resequencing of Large White, Duroc and Landrace pigs. Description: Only missense variants, frameshift variants, in-frame deletions and insertions, stop gained and start lost variants are reported. For each pig breed (Large White, Duroc and Landrace), the number of animals carrying the three genotypes and allele frequencies are provided. Table S18. All significant Gaussian Graphical Model (GGM) edge weights (i.e. Partial Correlation Coefficients, PCC > 0.3) obtained from the metabolomic profiles of the investigated Large White and Duroc pigs. Description: Comparative information reported in previous studies in humans, the linked mQTL and the proposed metabolic pathway explanations are provided.