Author

Erin L. Brown

Institute for Stem Cell Biology and Regenerative MedicineORCID 0000-0002-0004-3487Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:scRNA-seq· 2 Research Focus:batch correction / integration· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1

Frequent Co-Authors

Aaron M. NewmaniD· 2 shared Minji KangiD· 2 shared Wubing ZhangiD· 2 shared Aadel A. ChaudhuriiD· 1 shared Abul UsmaniiD· 1 shared Andrew J. GentlesiD· 1 shared Chloé Beate SteeniD· 1 shared David Y. CheniD· 1 shared

Activity by Year

2023-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersGenomics

Aaron M. NewmanORCID

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2 papers

Recent·Most cited

Mapping single-cell developmental potential in health and disease with interpretable deep learning

Minji Kang, José Juan Almagro Armenteros, Gunsagar Singh Gulati, Rachel Gleyzer, Susanna Avagyan, Erin L. Brown, Wubing Zhang, Abul Usmani, Noah J. Earland, Zhenqin Wu, James Zou, Ryan Courtney Fields, David Y. Chen, Aadel A. Chaudhuri, Aaron M. Newman

The paper introduces CytoTRACE 2, a deep learning framework to assess cell potency from scRNA-seq data, showing improved performance across multiple datasets and applications.

Nature Methods · Oct 27, 2025Peer-reviewedGenomics

Robust alignment of single-cell and spatial transcriptomes with CytoSPACE

Milad Rafiee Vahid, Erin L. Brown, Chloé Beate Steen, Wubing Zhang, Hyun Soo Jeon, Minji Kang, Andrew J. Gentles, Aaron M. Newman

CytoSPACE aligns single-cell and spatial transcriptomes using convex linear optimization, outperforming existing methods in noise-tolerance, accuracy, and efficiency.

Nature Biotechnology · Mar 6, 2023Peer-reviewedGenomics