219-GHIST: Spatial Gene Expression from Histology

Paper Talk · Nov 9, 2025 · 19m

The article introduces a novel deep learning framework named GHIST (Gene expression from HISTology) designed to predict spatially resolved gene expression at a single-cell resolution using routinely collected H&E-stained histology images. Recognizing the high cost and complexity of current spatial transcriptomics technologies, GHIST leverages multitask deep learning to integrate multiple biological information layers, including cell type, nuclei morphology, and neighborhood composition, to enhance prediction accuracy. The authors demonstrate that GHIST outperforms existing spot-based methods…