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New framework links tissue morphology to gene expression predictions

Researchers have developed a new explainable framework that links transcriptional programs to tissue morphology using vision transformer (ViT) models. This framework combines relevance propagation with concept discovery to provide both local and global insights into how morphological patterns influence gene expression predictions. Applied to colorectal cancer data, the approach accurately predicts clinically relevant signatures and molecular phenotypes, demonstrating spatial heterogeneity across subtypes and stratifying patient outcomes. AI

IMPACT Enhances interpretability of AI models in pathology, potentially improving diagnostic accuracy and understanding of disease mechanisms.

RANK_REASON Academic paper detailing a new framework for explainability in pathology models. [lever_c_demoted from research: ic=1 ai=1.0]

Read on Hugging Face Daily Papers →

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New framework links tissue morphology to gene expression predictions

COVERAGE [1]

  1. Hugging Face Daily Papers TIER_1 English(EN) ·

    Concept-based explanation of gene expression prediction from H&E images

    Recent advances in pathology foundation models have enabled accurate prediction of spatial transcriptomics (ST) from routine H&E images. However, existing explainability methods for vision transformer (ViT)-based models are largely limited to local heatmaps and do not reveal …