Author

Ayush Agrawal

Arc Research InstituteORCID 0000-0002-1477-3085Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 2 Assay:scRNA-seq· 2 Research Focus:benchmarking· 1 Research Focus:clustering· 1 Approach:contrastive learning· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Research Focus:dimensionality reduction· 1

Frequent Co-Authors

Yusuf RoohaniiD· 2 shared Aidan F. WintersiD· 1 shared Alex Dobin· 1 shared Alexander MarsoniD· 1 shared Caroline M. WilsoniD· 1 shared Dave P. Burke· 1 shared Felix Yi-Chung FengiD· 1 shared Hani GoodarziiD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersCell Biology

Yusuf RoohaniORCID

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2 papers

Recent·Most cited

Cell BiologyNaturePeer-reviewedJul 8, 2026

Universal Cell Embeddings: A Foundation Model for Cell Biology

Yanay Rosen, Yusuf Roohani, Ayush Agrawal…·Jure Leskovec

The paper introduces UCE, a foundation model that creates a universal cell embedding space from single-cell data across species, enabling new insights into cell organization and function.

259 citationstop 1%

humanmultiple species

𝕏 PostBluesky

Synthetic BiologybioRxivPreprintFeb 5, 2026

Scalable probe-based single-cell transcriptional profiling for virtual cell perturbation mapping and synthetic biology phenotyping

Jason T. Swinderman, Po‐Yuan Tung, Aidan F. Winters…·Luke A. Gilbert

ProPer-seq is a cost-effective, barcode-free single-cell perturbation profiling method that enables scalable analysis of synthetic biology perturbations and reveals transcriptional control principles.

3 citations

scRNA-seqexperimental assay

𝕏 PostBluesky