Additional file 2 of Integrated multi-omic analysis of low-grade ovarian serous carcinoma collected from short and long-term survivors

Additional file 2: Table S1. Patient characteristics and total number of  LGSOC samples with each type of omics analyses performed. Table S2. List of 409 genes in the Ion AmpliSeq Comprehensive Cancer Panel assessed by targeted sequencing. Table S3. SNVs and InDels identified by targeted sequencing. Table S4. Whole-genome sequencing coverage data and variants detected. Table S5. Summary of missense and InDel somatic mutations in exon regions with variant allele frequency > 15%. Table S6. All missense and InDel somatic mutations in exon regions with variant allele read count ≥ 3. Table S7. Regions with CNVs detected in each sample. Table S8. Expression values from RNAseq analysis of 12 LGSOC samples. Table S9. Global proteomic data. Table S10. Differentially expressed proteins between short-term and long-term survivors. Table S11. Proteins with higher expression in short-term survivors with targeted drugs. Table S12. Enrichment of pathways correlated with differentially expressed Protein between long-term and short-term survivors by Metascape analysis. Table S13. Characteristics of LGSOC_Inova Validation Samples. Table S14. Global phosphosites detected. Table S15. List of 42 phosphosites of specific proteins that were significantly differentially expressed between LGSOC tumors from long-term survivors and those from short-term survivors. Table S16. Enrichment of pathways correlated with differentially expressed phosphosites in Protein between long-term and short-term survivors by Metascape analysis.