Fig. 7
From: Long-term maintenance of patient-specific characteristics in tumoroids from six cancer indications
Previously established tumoroid lines adapted to OncoPro medium have similar genomic and transcriptomic characteristics compared to the cultures grown in homebrew media. (a) Single nucleotide base substitutions (top) and oncogenic single nucleotide variants present in the samples following sequencing with the Oncomine Comprehensive Assay v3 (OCAv3) and mutation calls called using the Oncomine Variants filter 5.18 within the Ion Reporter software (bottom). (b) Principal component analysis (PCA) plot comparing gene expression levels in initial cells (triangles; directly from vendors or from internal cell banks) and cells expanded using homebrew embedded culture (circles), OncoPro medium embedded culture (squares), and OncoPro medium suspension culture (crosses). (c) Differential gene expression analysis of pancreas tumoroids cultured in PDMR-recommended homebrew media (embedded format) and OncoPro medium (suspension format; n = 3), showing differentially expressed genes (DEGs) at fold change > 2 and false discovery rate (FDR) < 0.05. Percentage change in transcriptome (c, top) and analysis for enriched Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways in genes highly expressed during suspension culture in OncoPro medium (c, bottom). Top 10 results are shown. Dotted line indicates FDR = 0.05. No KEGG pathway was enriched when highly expressed genes in homebrew medium were used in the analysis.
