Fig. 3: Transcriptomic analysis of ex vivo models of PDAC.
From: Bioengineered 3D models of human pancreatic cancer recapitulate in vivo tumour biology
a Hierarchically clustered distance matrix of the PDAC samples analysed by RNA sequencing. Distance is shown in colour-coded arbitrary units. b Regularised log2 expression of the top 20,000 genes expressed in all samples. c Volcano plot showing gene enrichment in primary tumours compared to PA-ECM monocultures, with correction for interpatient differences. d Heatmap depicting pathways identified by gene set enrichment analysis that are up- or downregulated in 3D models with respect to 2D monolayers. Normalised enrichment scores (NES) are colour-coded. e Correlation of epithelial and matrisome gene list expression between primary PDAC tissues and their corresponding organoids and PA-ECM cultures. Mean and range are shown for two biologically independent replicates per sample type. ORG organoids, SPH spheres, PRI primary tumours.
