Author

Kaishu Mason

University of PennsylvaniaORCID 0000-0002-0282-1190Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Research Focus:differential expression· 2 Research Focus:batch correction / integration· 1 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Assay:CRISPR screen· 1 Organism:human· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Nancy Ruonan ZhangiD· 2 shared Andy J. MinniD· 1 shared Anuja SatheiD· 1 shared Chi-Yun WuiD· 1 shared Clara Morral Martinez· 1 shared Divij MathewiD· 1 shared E. John WherryiD· 1 shared Emma Elizabeth FurthiD· 1 shared

Activity by Year

2023-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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2 shared papersBioinformatics

Nancy Ruonan ZhangORCID

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3 papers

Recent·Most cited

Robust differential expression testing for single-cell CRISPR screens at low multiplicity of infection

Timothy Barry, Kaishu Mason, Kathryn Roeder, Eugene Katsevich

This study benchmarks association testing methods for low MOI perturb-seq data, identifies analysis challenges, and introduces SCEPTRE low-MOI to improve calibration and power.

Genome biology · May 17, 2024Peer-reviewedGenomics

Signal recovery in single cell batch integration

Zhaojun Zhang, Divij Mathew, Tristan Lim, Kaishu Mason, Clara Morral Martinez, Sijia Huang, E. John Wherry, Katalin Suszták, Andy J. Minn, Zongming Ma, Nancy Ruonan Zhang

This paper introduces CellANOVA, a statistical model to recover biological signals lost during single-cell data integration by distinguishing batch effects from true biological variation.

bioRxiv · May 5, 2023 · PreprintBioinformatics

Niche differential gene expression analysis in spatial transcriptomics data identifies context-dependent cell-cell interactions

Kaishu Mason, Anuja Sathe, Paul Hess, Jiazhen Rong, Chi-Yun Wu, Emma Elizabeth Furth, Hanlee P. Ji, Nancy Ruonan Zhang

The paper introduces niche-differential expression analysis to identify context-dependent cell-cell interactions in spatial transcriptomics data and applies it to colorectal cancer metastases.

bioRxiv · Jan 3, 2023 · PreprintBioinformatics