Author

Hanrui Zhang

Columbia University Irving Medical CenterORCID 0000-0001-9924-0319Unclaimed 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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Organism:human· 2 Assay:ChIP-seq· 1 Research Focus:gene regulatory network inference· 1 Research Focus:perturbation response prediction· 1 Assay:scRNA-seq· 1 Approach:statistical model· 1 Approach:transformer / foundation model· 1

Frequent Co-Authors

Alan P. BoyleiD· 1 shared Alon Katz· 1 shared Bharath Kumar SwargamiD· 1 shared Bicna SongiD· 1 shared Christopher Lee· 1 shared Danwei HuangfuiD· 1 shared Dingyu LiuiD· 1 shared Gary Hon· 1 shared

Activity by Year

2020-2026 · peak 1/yr

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10 top collaborators · 24 mutual co-author links

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1 shared paperBioinformatics

Alan P. BoyleORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintMar 16, 2026

pertTF: context-aware AI modeling for genome-scale and cross-system perturbation prediction

Yangqi Su, Dingyu Liu, Vipin K. Menon…·Wei Li

The paper introduces pertTF, a transformer-based model for predicting genetic perturbation responses, showing improved performance in expression prediction and cell identity shifts across cellular contexts.

1 citation

humanscRNA-seq

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BioinformaticsbioRxivPreprintOct 22, 2020

Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data

Tingting Qin, Christopher Lee, Raymond G. Cavalcante…·Maureen A. Sartor

The paper develops genome-wide enhancer-to-target gene assignments across >500 cell types and shows they outperform naive methods in gene set enrichment analysis.

1 citation

humanChIP-seq

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