Fig. 2

Generation of expression-based tissue compartments and overlap with morphological tissue compartments. a The virtually stained H&E images of the samples from non-relapsed (patient 1–5) and relapsed patients (patient 6–10). b Tissue classified into neoplastic and non-neoplastic tissue compartment by a pathology expert based on morphological characteristics. c Gene expression-based neoplastic and non-neoplastic tissue compartment by using the in situ sequencing tumour gene signature (EREG, MET, BIK, CD44, ITGAV, MYBL2, CCND1 and S100A4). d Overlap of the morphological- and the gene expression-based tissue compartment for neoplastic tissue. The mean overlap-value for the tumour gene signature is 0.77. e Ratios of the counted gene per cell value between the gene expression-based and the morphological- based neoplastic tissue compartment depicted as polar chart. Thereby, each data point shows the ratio for a certain in situ sequencing gene. f Projection of morphological obtained tissue compartment on the DAPI images. g Projection of gene expression-based tissue compartment on the DAPI images. Size bar is the same for all images