Author

Ziyi Li

National Institutes of Health

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

Same name, identified by ORCID

Biology Disciplines

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Bioinformatics· 1 Cancer Biology· 1 Genomics· 1 Immunology· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Organism:human· 4 Approach:statistical model· 4 Approach:experimental assay· 3 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Assay:proteomics· 2 Assay:scRNA-seq· 2

Frequent Co-Authors

Isabelle KowaliD· 2 shared Ying HaoiD· 2 shared Yue A. Qi· 2 shared Abhishek MurtiiD· 1 shared Alan C. MulleniD· 1 shared Alex G. CuencaiD· 1 shared Andrea MalaspinaiD· 1 shared Ankur SharmaiD· 1 shared

Activity by Year

2025-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 15 mutual co-author links

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2 shared papersBioinformatics

Isabelle KowalORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

Neutrophils orchestrate pre-metastatic immunosuppressive bone marrow remodeling during prostate cancer metastasis

Yingkui Tang, Xuan Zhou, Duocai Li, Yadan Liu, Guanghui Zhu, Jian Wang, Xiumei Wu, Da Zhong, Ziyi Li, Haojie Huang, Bin-Zhi Qian, Yuanyuan Zhang, Jianru Xiao, Zhiying Yue, Sujun Chen, Shancheng Ren

This study identifies IGF1R-dependent neutrophil reprogramming in the bone marrow microenvironment during prostate cancer metastasis and shows its therapeutic targeting potential.

bioRxiv · Oct 9, 2026 · PreprintCancer Biology

ProtPipe2: Multi-Platform Downstream Proteomics Analysis Tool

Jacob Epstein, Cory A. Weller, Isabelle Kowal, Ying Hao, Cole Tindall, Benjamin Jin, Mark Cookson, Mike A. Nalls, Ziyi Li, Yue A. Qi

ProtPipe2 provides a unified framework for downstream proteomics analysis across mass spectrometry, Olink, and SomaScan platforms, enabling consistent workflows and reusable analyses.

bioRxiv · Sep 21, 2026 · PreprintBioinformatics

HLiCA: An integrated cell atlas of the healthy human liver

Rachel D. Edgar, Jordan R. Portman, Hongru Hu, Delaram Pouyabahar, Raza R. Rahman, Daniel Stueckmann, Yongin Choi, Drew R. Neavin, Jawairia Atif, Zoe A. Clarke, Ran Gao, Shruti Khare, Ziyi Li, Liesbet Martens, Abhishek Murti, , Gary D. Bader

The paper integrates multiple datasets to create a comprehensive human liver cell atlas, identifying new cell types and associations with demographic factors.

bioRxiv · Jul 4, 2026 · PreprintGenomics

Bidirectional regulation of glycoprotein nonmetastatic melanoma protein B by β-glucocerebrosidase deficiency in GBA1 isogenic dopaminergic neurons from a patient with Gaucher disease and parkinsonism

Chase Chen, Charis Ma, Richard Sam, Jens Lichtenberg, Tiffany Chen, Ying Hao, Ziyi Li, Isabelle Kowal, Katherine M. Andersh, Yue Andy Qi, Gani Perez, Ellen Hertz, Yan Li, Darian Williams, Mark J. Henderson, , Yu Chen

The paper investigates how GBA1 mutations affect glycoprotein nonmetastatic melanoma protein B (GPNMB) expression in dopaminergic neurons, linking lipid accumulation to Parkinson's disease risk.

bioRxiv · Jun 23, 2025 · PreprintNeuroscience

TDP-43 pathology induces CD8+ T cell activation through cryptic epitope recognition

Shahab Chizari, Matteo Zanovello, Steven Lingyang Kong, Vidur J. Saigal, Anna‐Leigh Brown, Valentina Turchetti, Bingxian Chen, Connor C. Devine, Luca Zampedri, Iwona Skorupinska, Giacomo Maria Minicuci, Francesca Paron, Paola Tonin, Giulia Marchetto, Ziyi Li, , Ning Jenny Jiang

This study identifies cryptic epitopes from de novo proteins caused by TDP-43 pathology as targets of CD8+ T cell activation in ALS and IBM.

bioRxiv · Jun 22, 2025 · PreprintImmunology