Author

Wenjie Cai

Northwestern UniversityORCID 0000-0002-5352-8779Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 2 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 3 Approach:experimental assay· 2 Organism:mouse· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell signaling & trafficking· 1 Research Focus:development & morphogenesis· 1

Frequent Co-Authors

Ching Man WaiiD· 2 shared Ermin LiiD· 2 shared Honghao BiiD· 2 shared Inci AydemiriD· 2 shared Kehan ReniD· 2 shared Pan Wang· 2 shared Peng JiiD· 2 shared Aflah HanafiahiD· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersGenomics

Ching Man WaiORCID

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Author profile →

3 papers

Recent·Most cited

Binary-SPA: A Reference-Free Method for Cell Annotation in High-Resolution Spatial Transcriptomics

Honghao Bi, Wenjie Cai, Pan Wang, Kehan Ren, Inci Aydemir, Ermin Li, Johanna Melo‐Cardenas, Matthew John Schipma, Ching Man Wai, Peng Ji

Binary-SPA improves cell type annotation in spatial transcriptomics by using a two-stage approach without requiring external reference data.

Nucleic Acids Research · Aug 5, 2026Peer-reviewedGenomics

Stromal Gasdermin D-mediated Pyroptosis Drives Maladaptive CD4⁺ T-cell Remodeling in Tet2-Deficient Hematopoiesis

Kehan Ren, Xu Han, Ermin Li, Pan Wang, Honghao Bi, Wenjie Cai, Inci Aydemir, Ching Man Wai, Hongshen Niu, Jing Yang, Yijie Liu, Brian Vadasz, Madina Jh. SUKHANOVA, Deyu Fang, Weiguo Cui, Peng Ji

This study shows that stromal gasdermin D-mediated pyroptosis promotes CD4⁺ T-cell remodeling in Tet2-deficient hematopoiesis by creating a feedback loop between stromal cells and immune cells.

bioRxiv · May 5, 2026 · PreprintCancer Biology

PRC1 and CTCF-Mediated Transition from Poised to Active Chromatin Loops Drives Bivalent Gene Activation

Aflah Hanafiah, Zhuangzhuang Geng, Tingting Liu, Yen Teng Tai, Wenjie Cai, Qiang Wang, Neil David Christensen, Yan Liu, Feng Yue, Zhonghua Gao

The paper identifies PRC1 and CTCF's role in forming chromatin loops that maintain bivalent genes in a poised state for activation during differentiation.

bioRxiv · Nov 13, 2024 · PreprintGenomics