Additional file 2 of Integrated epigenome, whole genome sequence and metabolome analyses identify novel multi-omics pathways in type 2 diabetes: a Middle Eastern study

Additional file 2: Table S1. Results of two way discovery replication T2D EWAS using cohorts 1 and 2. Table S2. Results of lookup of the identified 66 T2D CpGs in databases and previous literature. Table S3. Replication of literature findings. Table S4. eQTM at FDR < 0.05 from BIOS QTL site for all 66 T2D CpGs. Table S5. KEGG pathway (Pathways relevant to diabetes or complications are highlighted). Table S6. All 688 CpG-SNP significant associations in 27 loci. Table S7. GWAS associations for the SNPs in the neighborhood of meQTL SNPs as reported in the GWAS catalogue. Table S8. GWAS associations for the SNPs in the neighborhood of meQTL SNPs as reported in the Stanford bio bank. Table S9. A)Discovery and Replication cohorts for T2D MWAS, B)T2D significant metabolites with the discovery and replication statistics. Table S10. 77 CpG-metabolite association results from meta-analysis (11 colored rows are associations with high heterogeneity (p<0.05)). Table S11. Associations of 16 metabolites from the multi-omics network with BMI, lipoproteins and triglycerides. Table S12. Characteristics of metabolomics samples used for the T2D MWAS.