Author

Yan Zhang

University of PittsburghORCID 0000-0002-2267-8408Unclaimed ORCID profile · follow to get notified of new preprints

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Yan Zhang32 papers · BGI Group (China)

Biology Disciplines

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Systems Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Assay:scRNA-seq· 3 Research Focus:trajectory inference· 3 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Approach:statistical model· 2 Approach:graph neural network· 1 Approach:machine learning (classical)· 1 Assay:multiome· 1

Frequent Co-Authors

Jianhua XingiD· 3 shared İvet BahariD· 2 shared Ke NiiD· 2 shared Amitava GiriiD· 1 shared Angela N. PogsoniD· 1 shared Chen WengiD· 1 shared Dian YangiD· 1 shared Emanuelle I. GrodyiD· 1 shared

Activity by Year

2022-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 28 mutual co-author links

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3 shared papersSystems Biology

Jianhua XingORCID

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3 papers

Recent·Most cited

Epithelial-mesenchymal transition couples with cell cycle arrest at various stages

Sophia Hu, Yong Lu, Gaohan Yu, Zhiqian Zheng, Ke Ni, Amitava Giri, Jingyu Zhang, Yan Zhang, Guang Yao, Jianhua Xing

The paper shows that EMT paths are influenced by cell cycle phase coupling and highlights the limitations of low-dimensional representations in capturing transition dynamics.

Communications Biology · Jan 29, 2026Peer-reviewedSystems Biology

GraphVelo allows for accurate inference of multimodal velocities and molecular mechanisms for single cells

Yuhao Chen, Yan Zhang, Jiaqi Gan, Ke Ni, Ming Chen, İvet Bahar, Jianhua Xing

GraphVelo extends RNA velocity inference to multimodal data by using graph-based machine learning to preserve vector information across different data representations.

Nature Communications · Aug 22, 2025Peer-reviewedBioinformatics

Mapping Transcriptomic Vector Fields of Single Cells

Xiaojie Qiu, Yan Zhang, Jorge Diego Martin-Rufino, Chen Weng, Shayan Hosseinzadeh, Dian Yang, Angela N. Pogson, Marco Y. Hein, Kyung Hoi Min, Li Wang, Emanuelle I. Grody, Matthew J. Shurtleff, Ruoshi Yuan, Song Xu, Yi-An Ma, , Jonathan S. Weissman

The paper introduces dynamo, a framework for estimating RNA velocities and predicting cell fates using single-cell RNA-seq data, applied to various biological processes.

Cell · Feb 1, 2022Peer-reviewedSystems Biology