Fig. 7: Defining tissue-specific gene modules to connect with key immunohistochemical features. | npj Digital Medicine

Fig. 7: Defining tissue-specific gene modules to connect with key immunohistochemical features.

From: Biologically informed deep neural networks provide quantitative assessment of intratumoral heterogeneity in post treatment glioblastoma

Fig. 7

a Heatmap depicting correlation between normalized gene expression and immunohistochemical labeling indices, with subsequent hierarchical clustering revealed three orthogonal tissue-specific gene modules. Module 1 consists of 3688 genes significantly positively correlated with SOX2/Ki67/H&E; module 2 consists of 1673 genes correlated with NeuN; module 3 consists of 2418 genes correlated with CD68. b Bar plot depicting top significant gene ontologies enriched in each of the three tissue-specific gene modules derived from the IHC-RNAseq correlation analysis. X axis is –log10 (p value) of each ontology. Module 1 is enriched in genes involved in proliferation (Pro), module 2 in neuronal-specific genes (Neu), and module 3 in genes in immune infiltration (Inf). c Heatmap depicting single-sample Gene Set Variation Analysis (GSVA) for each of 84 MRI-localized biopsies for each of the three tissue-specific gene modules. Color gradient represents magnitude/direction of tissue-specific enrichment for each biopsy.

Back to article page