Author

Alexandra J. Ferrante

Allen Institute for Cell Science

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Cell Biology· 2

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 2 Organism:human· 2 Assay:imaging· 2 Research Focus:cell signaling & trafficking· 1 Research Focus:clustering· 1 Approach:comparative / phylogenetic analysis· 1 Approach:contrastive learning· 1 Approach:deep learning· 1

Frequent Co-Authors

Antoine BorensztejniD· 2 shared Julie A. TheriotiD· 2 shared Matheus Palhares VianaiD· 2 shared Philip Garrison· 2 shared Susanne M. RafelskiiD· 2 shared Amber PhaniD· 1 shared Ashwin SamudreiD· 1 shared Benjamin MorrisiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 41 mutual co-author links

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2 shared papersCell Biology

Antoine BorensztejnORCID

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Author profile →

2 papers

Recent·Most cited

A human induced pluripotent stem (hiPS) cell model for the holistic study of epithelial to mesenchymal transitions (EMTs)

Caroline Hookway, Antoine Borensztejn, Leigh K. Harris, Tiffany Barszczewski, Sara G. Carlson, Gökhan Dalgin, Suraj Mishra, Ellen M. Adams, Julie C. Dixon, Renske J. Dupar, Jacqueline H. Edmonds, Erik A. Ehlers, Alexandra J. Ferrante, Margaret A. Fuqua, Clare Ruth Gamlin, , Susanne M. Rafelski

The paper presents a hiPS cell model to study EMTs by comparing 2D and 3D cultures, measuring changes in cell function, markers, organization, and environment.

Nature Methods · Jun 15, 2026Peer-reviewedCell Biology

Interpretable representation learning for 3D multi-piece intracellular structures using point clouds

Ritvik Vasan, Alexandra J. Ferrante, Antoine Borensztejn, Christopher L. Frick, Philip Garrison, Nathalie Gaudreault, Saurabh S. Mogre, Fatwir S. Mohammed, Benjamin Morris, Guilherme G. P. Freitas Pires, Daniel Saelid, Susanne M. Rafelski, Julie A. Theriot, Matheus Palhares Viana

This paper introduces a morphology-appropriate representation learning framework for 3D multi-piece intracellular structures, showing improved sub-cluster discovery and phenotypic profiling.

Nature Methods · Jul 1, 2025Peer-reviewedCell Biology