Author

Caihua Shan

Microsoft Research Asia (China)ORCID 0000-0001-9012-7088Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Research Focus:cell type annotation· 2 Research Focus:gene regulatory network inference· 2 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Approach:diffusion model· 1

Frequent Co-Authors

Kejing DongiD· 2 shared Yicheng GaoiD· 2 shared Dongsheng LiiD· 1 shared Fabian Joachim TheisiD· 1 shared Qi LiuiD· 1 shared Qi LiuiD· 1 shared Siming CheniD· 1 shared Till RichteriD· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersBioinformatics

Kejing DongORCID

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2 papers

Recent·Most cited

Language may be all omics needs: Harmonizing multimodal data for omics understanding with CellHermes

Yicheng Gao, Weixu Wang, Yuheng Zhao, Kejing Dong, Caihua Shan, Weizhong Zheng, Till Richter, Zekai Li, Siming Chen, Fabian Joachim Theis, Qi Liu

CellHermes integrates multimodal omics data using a biological language model, achieving comparable or better performance than single-cell models across various tasks.

bioRxiv · Nov 7, 2025 · PreprintBioinformatics

Causal disentanglement for single-cell representations and controllable counterfactual generation

Yicheng Gao, Kejing Dong, Caihua Shan, Dongsheng Li, Qi Liu

CausCell improves explainability and controllability of single-cell data through causal disentanglement learning and counterfactual generation.

Nature Communications · Jul 23, 2025Peer-reviewedBioinformatics