Additional file 2 of Oxidative stress gene expression, DNA methylation, and gut microbiota interaction trigger Crohn’s disease: a multi-omics Mendelian randomization study

Additional file 2: Table S1. Characteristics of six transcriptome datasets used in the study. Table S2. 817 OS-related genes with a relevance score ≥ 7 obtained from GeneCards. Table S3. Meta-analysis of 708 differentially expressed OS genes from six datasets. Table S4. Cell type-specific expression analysis (CSEA) of 438 intestinal OS DEGs. Table S5. Summary-based Mendelian randomization (SMR) analysis from blood gene expression to CD (FDR < 0.05). Table S6. SMR analysis from blood DNA methylation to CD (FDR < 0.05). Table S7. SMR analysis from blood DNA methylation to gene expression (FDR < 0.05). Table S8. Regulatory component annotation of 665 DNA methylation sites. Table S9. Meta-analysis between GTEx and 1000IBD intestinal cis-eQTLs (FDR < 0.05). Table S10. SMR analysis from intestinal gene expression to CD (FDR < 0.05). Table S11. Colocalization analysis between gene expression and gut microbiota (PPH4 > 0.5). Table S12. Demographic characteristics of FAH-SYS IBD multi-omics cohort. Table S13. External cohort validation: intestinal DEG results between CD and HC. Table S14. External cohort validation: associations between intestinal gene expression and gut microbiota.