Fig. 2: GHIST predictions on two breast cancer H&E images.
From: Spatial gene expression at single-cell resolution from histology using deep learning with GHIST
a,b, Comparison between cell types (a) and cell-type compositions (b) obtained from BreastCancer1 paired SST (Xenium) data and predicted cell types from expression predicted from H&E. c,d, Comparison between cell types (c) and cell-type compositions (d) obtained from BreastCancer2 paired SST (Xenium) data and predicted cell types from expression predicted from H&E. Scale bar, 1 mm. e, Predicted gene expression in individual cells from GHIST and SST data (for the gene SCD) on BreastCancer1. f, Box plot of the computed PCC between predicted and measured (ground truth) expression for the top 20 and 50 predicted SVGs and non-SVGs in both BreastCancer1 and BreastCancer2. Each box plot ranges from the first to third quartile with the median as the horizontal line. The lower whisker extends to 1.5 times the interquartile range below the first quartile, while the upper whisker extends to 1.5 times the interquartile range above the third quartile. The sample size corresponds to the number of genes included (either 20 or 50). g, Scatterplots showing the predicted SGE expression of SCD, FASN, FOXA1 and EPCAM compared to measured SST expression.
