Overcoming clinical resistance to EZH2 inhibition using rational epigenetic combination therapy

Supplementary data for Kazansky et al, "Overcoming clinical resistance to EZH2 inhibition using rational epigenetic combination therapy" and "Epigenetic targeting of PGBD5-dependent DNA damage in SMARCB1-deficient sarcomas." Raw RNA-seq data from G401 cells can be found at the Gene Expression Omnibus (GEO) repository, accession number GSE213845. RNA-seq data from patient tumor samples has been deposited to the Database of Genotypes and Phenotypes (dbGaP), accession number phs003188.v1.p1. All files are labeled with their corresponding figures. "DESeq_processing_FINAL.R" was used for analysis of patient RNA-seq data, using "20230131_SampleTable.csv" and all "*_htseq.txt" files as input. "Tumor_growth_analysis_FINAL_UPDATED" was used for analysis of tumor growth kinetics using the aucVardiTest function. This was used for both of the manuscripts desscribed above.