Additional file 2: of Epigenomic profiling of non-small cell lung cancer xenografts uncover LRP12 DNA methylation as predictive biomarker for carboplatin resistance

Additional Methods. Figure S1. Region used for the MSP of LRP12. Figure S2. MeDIP-Seq statistics of 54 samples including primary tumor tissues (P) and PDXs (X). Table S3. MeDIP-Sequencing statistics. Table S4 Methyl-Sequencing statistics. Figure S3. Correlation of methylation of overlapping DMRs in primary NSCLC and patient-derived xenografts. Table S5. Tumor content of primary tumors and genome-wide Spearman correlation of DMRs of primary tissue to the PDXs. Figure S4. Patientwise circos plots of overlapping DMRs of primary NSCLC and PDX. Figure S5. Comparison of methylation values of primary NSCLCs and PDXs. Figure S6. Methylation differences between non-responders and responders in large hypomethylated blocks (LHBs) on chromosomes 1, 2, and 4 as examples. Table S6. Histopathologic evaluation of primary tumor and PDX tumor. Figure S7. Ingenuity pathway and upstream regulator analyses of the 2380 genes differentially methylated. Figure S8. LRP12 knockdown induces carboplatin resistance. Table S9. Patient’s data and clinical characteristics of the validation cohort. Figure S9. LRP12 DNA hypermethylation as independent factor predictive for clinical outcome in NSCLC. Figure S10 LRP12 DNA hypermethylation as independent predictive factor for clinical outcome in 449 NSCLC patients from the TCGA data set. Additional references. (XLSX 141 kb

Additional file 1: of Epigenomic profiling of non-small cell lung cancer xenografts uncover LRP12 DNA methylation as predictive biomarker for carboplatin resistance

Table S1. Clinical characteristics of the study cohort. Table S2. Response rates of PDXs to carboplatin treatment. Table S7. Carboplatin therapy resistance-associated genes for which promoter DNA methylation is correlated to tumor volume. Table S8. Tumor suppressor genes with significant carboplatin rDMRs and differential expression. (DOC 4660 kb