Author

Kun Zhang

Shandong University

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

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Biology Disciplines

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Bioinformatics· 3 Cell Biology· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Research Focus:cell-cell communication· 1 Research Focus:dimensionality reduction· 1 Approach:experimental assay· 1

Frequent Co-Authors

Cuiling Lu· 1 shared Eleanor ValenziiD· 1 shared Haiyi Harry MaoiD· 1 shared Haojie He· 1 shared Harinder SinghiD· 1 shared Hongyan Guo· 1 shared Jiaqian Zhong· 1 shared Jie QiaoiD· 1 shared

Activity by Year

2018-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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1 shared paperCell Biology

Cuiling Lu

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4 papers

Recent·Most cited

Variable sparsity non-negative matrix and tensor factorization algorithms and their applications in cancer genomics

Timothy Pham, Jiaqian Zhong, Joseph Hwang, Ronit Agarwala, Kun Zhang, Prashant Mali, William Kim, Pablo Tamayo

This paper introduces variable-sparsity matrix and tensor factorization algorithms for cancer genomics to improve biological interpretability and modeling of cancer subtypes and pathways.

bioRxiv · Oct 19, 2026 · PreprintBioinformatics

Decoding the Oral-Cardiac Axis: FCN1 and LYN as Key Players in the Molecular Dialogue between Acute Myocardial Infarction and Periodontitis

Kun Zhang, Yanqing Wang

This study identifies shared molecular signatures between acute myocardial infarction and periodontitis, highlighting FCN1 and LYN as potential immune markers linking the two conditions.

bioRxiv · Jul 27, 2026 · PreprintBioinformatics

HALO: Hierarchical Causal Modeling for Single Cell Multi-Omics Data

Haiyi Harry Mao, Minxue Jia, Marissa E. Di, Eleanor Valenzi, Xiaoyu Tracy Cai, Harinder Singh, Robert Lafyatis, Kun Zhang, Panayiotis V. Benos

HALO models temporal causal relations in single-cell multi-omics data by distinguishing coupled and decoupled latent representations, revealing lineage specification dynamics in AT2 cells.

Nature Communications · Oct 7, 2025Peer-reviewedBioinformatics

Transcriptome Landscape of Human Oocytes and Granulosa Cells Throughout Folliculogenesis

Yaoyao Zhang, Zhiqiang Yan, Qingyuan Qin, Vicki Nisenblat, Yang Yu, Tianren Wang, Cuiling Lu, Ming Yang, Shuo Yang, Ying Yao, Xiaohui Zhu, Xi Xia, Yujiao Dang, Yixin Ren, Peng Yuan, , Liying Yan

This study profiles the transcriptomes of human oocytes and granulosa cells across folliculogenesis stages, identifying stage-specific genes, cell interactions, and differences from mouse oocytes.

bioRxiv · Mar 23, 2018 · PreprintCell Biology