Additional file 1 of Glutathione metabolism–associated resistance to cisplatin and 5-FU in esophageal cancer: a paired transcriptomic study

Supplementary Material 1. Additional File 1. Clinical characteristics of patients included in the RNA-seq cohort. Additional File 2. List of differentially expressed genes (DEGs) showing higher expression in the non-recurrence group compared with the recurrence group in PostNAC samples. Additional File 3. List of differentially expressed genes (DEGs) showing higher expression in the recurrence group compared with the non-recurrence group in PostNAC samples. Additional File 5. List of Gene Ontology biological processes (GO-BP) and KEGG pathways enriched among genes showing higher expression in the non-recurrence group compared with the recurrence group in PostNAC samples. Additional File 6. List of Gene Ontology biological processes (GO-BP) and KEGG pathways enriched among genes showing higher expression in the recurrence group compared with the non-recurrence group in PostNAC samples. Additional File 8. List of Gene Ontology (GO) terms and KEGG pathways enriched in the non-recurrence group of PostNAC samples identified by gene set enrichment analysis (GSEA). Enriched gene sets were defined based on normalized enrichment score (NES) and false discovery rate (FDR) q-values. Additional File 9. List of Gene Ontology (GO) terms and KEGG pathways enriched in the recurrence group of PostNAC samples identified by gene set enrichment analysis (GSEA). Enriched gene sets were defined based on normalized enrichment score (NES) and false discovery rate (FDR) q-values. Additional File 10. Clustering and gene expression analysis by RNAseqChef in PreNAC and PostNAC in the recurrence and non-recurrence groups. Additional File 11. Summary of Gene Ontology biological processes (GO-BP) and KEGG pathway enrichment analysis of genes classified into Groups 3 and 4 by RNAseqChef, representing genes upregulated in PostNAC samples compared with PreNAC samples in the recurrence group. Functional enrichment analysis was performed using DAVID. Additional File 12. Summary of Gene Ontology biological processes (GO-BP) and KEGG pathway enrichment analysis of genes classified into Groups 7 and 8 by RNAseqChef, representing genes downregulated in PostNAC samples compared with PreNAC samples in the recurrence group. Functional enrichment analysis was performed using DAVID. Additional File 13. ClinVar-based pathogenic variants in the PostNAC specimen. Additional File 14. ClinVar-based pathogenic variants that occurred or disappeared after NAC.