Author

Xiaodan Zhang

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Open access Oct 2026

In Vivo Transcriptomics-Based Framework for Systematic Indication Expansion

An in vivo transcriptomics-based drug repurposing framework that profiles multi-organ RNA-seq from drug-treated rodents to model systemic drug responses and match tissue-specific drug signatures against a compendium of disease signatures for indication expansion is presented.

Zsolt A. Palmer, Shubham Koirala, N. Talukdar et al. · bioRxiv · 0 citations

Open access Aug 2026

A pretrained unified model enables cellular functional profile prediction and multi-objective virtual drug screening

Cells are characterized by molecular states, coordinated molecular interactions, regulatory programs, and responses to perturbations. Systematic mapping of these cellular functional profiles across biological contexts remains experimentally costly and fragmented. Here we present InsilicoCell, a pretrained multi-modal,...

Ruoqiao Chen, Li Huang, Yu Qiao et al. · bioRxiv · 0 citations

Open access Aug 2026

Automating scientific annotations for open transcriptomic profiles via multi-stage agents

GEOMeta provides a scalable resource and reproducible framework for metadata curation in the Gene Expression Omnibus, and benchmarked transcriptome representation models for predicting sex, age, tissue and disease from transcriptome embeddings.

Xiaodan Zhang, S. Paithankar, Jing Pu et al. · bioRxiv · 0 citations