Author

Runzhe Xu

University of California, Los AngelesORCID 0000-0002-5364-4112Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Neuroscience· 3

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Research Focus:cell type annotation· 3 Organism:mouse· 3 Approach:statistical model· 3 Research Focus:clustering· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Assay:scRNA-seq· 2 Assay:spatial transcriptomics· 2

Frequent Co-Authors

Karthik ShekhariD· 3 shared S Lawrence ZipurskyiD· 3 shared Salwan ButrusiD· 3 shared Fangming XieiD· 2 shared Joshua T. TrachtenbergiD· 2 shared Liming TaniD· 2 shared Saumya JainiD· 2 shared Zhiqun TaniD· 2 shared

Activity by Year

2022-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersNeuroscience

Karthik ShekharORCID

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3 papers

Recent·Most cited

Establishing a continuum of cell types in the visual cortex

Juyoun Yoo, Fangming Xie, Salwan Butrus, Runzhe Xu, Zhiqun Tan, Ryan C. Gorzek, Parmis Mirshahidi, Elaine Tring, Sanjana Suresh, Jinho Kim, Greg M. Fleishman, Liming Tan, Dario L. Ringach, Joshua T. Trachtenberg, Xiangmin Xu, , Saumya Jain

The paper shows that the L2/3 continuum in the mouse visual cortex develops through two phases: a genetically programmed initial phase and a visually experience-driven second phase.

bioRxiv · Sep 22, 2025 · PreprintNeuroscience

Spatial profiling of the interplay between cell type- and vision-dependent transcriptomic programs in the visual cortex

Fangming Xie, Saumya Jain, Runzhe Xu, Salwan Butrus, Zhiqun Tan, Xiangmin Xu, Karthik Shekhar, S Lawrence Zipursky

The paper uses spatial transcriptomics and computational methods to show that vision affects both cell state and cell type composition in the visual cortex during critical periods.

Proceedings of the National Academy of Sciences · Feb 13, 2025Peer-reviewedNeuroscience

Vision is Required for Cell Type Specification in the Visual Cortex

Sarah Cheng, Salwan Butrus, Liming Tan, Runzhe Xu, Srikant Sagireddy, Joshua T. Trachtenberg, Karthik Shekhar, S Lawrence Zipursky

The paper shows that vision selectively drives the specification of upper-layer glutamatergic cell types in the mouse visual cortex through gene expression regulation.

Cell · Jan 1, 2022Peer-reviewedNeuroscience