SCellST predicts single-cell gene expression from H& E images.

ABSTRACT: Understanding the spatial organization of individual cell types within tissue and how this organization is disrupted in disease, is a central question in biology and medicine. Hematoxylin and eosin-stained slides are widely available and provide detailed morphological context, while spatial gene expression profiling offers complementary molecular insights, though it remains costly and limited in accessibility. Predicting gene expression directly from histological images is therefore an attractive goal. However, existing approaches typically rely on small image patches, limiting resolution and the ability to capture fine-grained morphological variation. Here, we introduce a deep learning approach that predicts single-cell gene expression from morphology, matching patch-based methods on spot

SUBMITTER: Chadoutaud L 

PROVIDER: S-EPMC12858858 | biostudies-literature | 2026 Jan

REPOSITORIES: biostudies-literature