4 papers
RankByGene: Gene-Guided Histopathology Representation Learning Through Cross-Modal Ranking Consistency
Wentao Huang, Meilong Xu, Xiaoling Hu +9
Spatial transcriptomics (ST) provides essential spatial context by mapping gene expression within tissue, enabling detailed study of cellular heterogeneity and tissue organization.…
DeepVRegulome: DNABERT-based deep-learning framework for predicting the functional impact of short genomic variants on the human regulome
Pratik Dutta, Matthew Obusan, Rekha Sathian +8
Whole-genome sequencing (WGS) has revealed numerous non-coding short variants whose functional impacts remain poorly understood. Despite recent advances in deep-learning genomic ap…
PEaRL: Pathway-Enhanced Representation Learning for Gene and Pathway Expression Prediction from Histology
Sejuti Majumder, Saarthak Kapse, Moinak Bhattacharya +3
Integrating histopathology with spatial transcriptomics (ST) provides a powerful opportunity to link tissue morphology with molecular function. Yet most existing multimodal approac…
MERGE: Multi-faceted Hierarchical Graph-based GNN for Gene Expression Prediction from Whole Slide Histopathology Images
Aniruddha Ganguly, Debolina Chatterjee, Wentao Huang +4
Recent advances in Spatial Transcriptomics (ST) pair histology images with spatially resolved gene expression profiles, enabling predictions of gene expression across different tis…