Author

Shamus M. Cooley

University of California, Los AngelesORCID 0000-0001-8939-5851Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Research Focus:dimensionality reduction· 1 Assay:scRNA-seq· 1 Approach:statistical model· 1

Frequent Co-Authors

Breanne SpartaiD· 1 shared Eric J. DeedsiD· 1 shared J. Christian J. RayiD· 1 shared Samuel D. AragonesiD· 1 shared Timothy HamiltoniD· 1 shared

Activity by Year

2026-2026 · peak 1/yr

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1 shared paperBioinformatics

Breanne SpartaORCID

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1 paper

Recent·Most cited

BioinformaticsbioRxivPreprintMay 11, 2026

A novel metric reveals previously unrecognized distortion in dimensionality reduction of scRNA-Seq data

Timothy Hamilton, Breanne Sparta, Shamus M. Cooley…·Eric J. Deeds

Comparing local point neighborhoods before and after dimensionality reduction reveals that standard scRNA-seq pipelines, t-SNE, and UMAP often distort local neighborhoods by more than 95%, altering downstream clustering.

53 citations

scRNA-seqstatistical model

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