Author

Shang-Yang Chen

GenentechORCID 0000-0002-6864-4713Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Organism:human· 1

Frequent Co-Authors

Aaron T. L. LuniD· 1 shared Adrian Waddell· 1 shared Alejandro Martinez ChiblyiD· 1 shared Aleksander ChlebowskiiD· 1 shared Ana TeodòsioiD· 1 shared Andrew D. FileriD· 1 shared Anna B. MontgomeryiD· 1 shared Antonina HafneriD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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1 shared paperBioinformatics

Aaron T. L. LunORCID

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2 papers

Recent·Most cited

ImmunologybioRxivPreprintAug 4, 2026

CX3CR1 And MHCII Define Distinct Synovial Macrophage Populations With Conserved Inflammatory Response Across Mouse Models Of Rheumatoid Arthritis.

Yidan Wang, Shang-Yang Chen, Philip Homan…·Deborah R. Winter

The paper identifies four distinct synovial macrophage populations in RA models and shows conserved inflammatory responses across conditions.

DOI 10.64898/2026.07.30.741914

mousebulk RNA-seq

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BioinformaticsNature CommunicationsPeer-reviewedAug 2, 2025

Epiregulon: Inference of single-cell transcription factor activity to predict drug response and drivers of cell state

Tomasz Włodarczyk, Aaron T. L. Lun, Diana H. Wu…·Xiaosai Yao

Epiregulon infers single-cell TF activity using ATAC-seq and RNA-seq to predict drug response and identify drivers of cell state.

13 citations

humanscATAC-seq

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