Author

Chunfang Zhu

Stanford MedicineORCID 0000-0002-6773-0820Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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

Frequent Co-Authors

Robert B. WestiD· 2 shared David G.P. van IJzendoorniD· 1 shared Joseph W. FoleyiD· 1 shared Maarten van der LindeiD· 1 shared Magdalena MatusiakiD· 1 shared Michael Joseph MeaneyiD· 1 shared Mohita MahajaniD· 1 shared Peipei Lu· 1 shared

Activity by Year

2019-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 25 mutual co-author links

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2 shared papersBioinformatics

Robert B. WestORCID

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2 papers

Recent·Most cited

Resolving the immune response across clonal cancer evolution in situ with Atera whole transcriptome profiling

Shaocheng Wu, Mohita Mahajan, Maarten van der Linde, Chunfang Zhu, Robert B. West, David G.P. van IJzendoorn, Magdalena Matusiak

This study evaluates Atera, a spatial transcriptomics platform, showing its ability to resolve clonal cancer evolution and immune response in situ using DCIS samples.

bioRxiv · Aug 21, 2026 · PreprintBioinformatics

Gene-expression profiling of single cells from archival tissue with laser-capture microdissection and Smart-3SEQ

Joseph W. Foley, Chunfang Zhu, Philippe Jolivet, Shirley Zhu, Peipei Lu, Michael Joseph Meaney, Robert B. West

This paper introduces Smart-3SEQ, a method for accurate gene expression profiling from small RNA samples, including FFPE tissue, and demonstrates its application to identify new macrophage phenotypes in the tumor microenvironment.

Genome Research · Nov 1, 2019Peer-reviewedGenomics