Figure 5
From: Integrating single-cell RNA-seq and imaging with SCOPE-seq2
Relationships between cell imaging features and transcriptional phenotypes in GBM. (A) UMAP embedding from Fig. 4A colored by the malignancy score (the scHPF-imputed difference between Chr.7 and Chr.10 average expression), which indicates malignantly transformed GBM cells based on aneuoploidy. (B) Two-dimensional diffusion map of malignantly transformed GBM cells, colored by the scHPF cell scores for factors enriched in GBM lineage markers. (C) Clustering of imaging meta-features for the malignantly transformed GBM cells. A heatmap shows the values for three imaging meta-features, and a dendrogram shows the unsupervised hierarchical clustering of cells. Two major imaging clusters of cells are colored. (D) Diffusion map in (B) colored by the imaging clusters identified in (C). (E) Diffusion map in (B) colored by the values of the three imaging meta-features shown in (C). (F) Volcano plot for differential expression analysis comparing the two major imaging clusters. Genes with an adjusted p value (FDR) < 0.05 are indicated in red and many correspond to key markers of the two major GBM branches that were identified.
