Author

Arrun Sivasubramanian

Johns Hopkins UniversityORCID 0000-0002-0604-2397Unclaimed 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:benchmarking· 2 Approach:deep learning· 2 Assay:imaging· 2 Research Focus:cell type annotation· 1 Research Focus:database / resource· 1 Approach:diffusion model· 1 Organism:human· 1 Research Focus:software / tool· 1

Frequent Co-Authors

André ForjaziD· 2 shared Ashley L. KiemeniD· 2 shared Denis WirtziD· 2 shared Laura DeLong WoodiD· 2 shared Lucie DequiedtiD· 2 shared Ralph H. HrubaniD· 2 shared Saurabh JoshiiD· 2 shared Alexander T.F. BelliD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersBioinformatics

André ForjazORCID

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2 papers

Recent·Most cited

CODAvision: best practices and a user-friendly interface for rapid, customizable segmentation of medical images

Valentina Matos-Romero, Jaime Gómez-Becerril, André Forjaz, Lucie Dequiedt, Tyler Newton, Saurabh Joshi, Yu Shen, Eban A. Hanna, Praful R. Nair, Arrun Sivasubramanian, Si-Han Wang, Emily L. Lasse Opsahl, Alexander T.F. Bell, Diogo Fróis-Vieira, Julianna M. Czum, , Ashley L. Kiemen

CODAvision provides a user-friendly interface for rapid, customizable medical image segmentation using deep learning, enabling non-experts to train and evaluate models across diverse imaging modalities.

Nature Protocols · Jul 7, 2026Peer-reviewedBioinformatics

Virtual multiplex staining of the pancreatic islets across type 1 diabetes progression using a Schroedinger bridge

Ye Shen, Won June Cho, Saurabh Joshi, Benjamin Wen, Swarnagouri Naganathanhalli, Maria L. Beery, Casey Grubel, Arrun Sivasubramanian, André Forjaz, Mia P. Grahn, Lucie Dequiedt, Yuru Huang, Fan Wu, Brian A. Pedro, Laura DeLong Wood, , Ashley L. Kiemen

This paper introduces SMILE, a diffusion model for converting H&E stains to multiplex IHC images, showing superior performance in pancreatic islet analysis and breast cancer stain conversion.

bioRxiv · Apr 17, 2026 · PreprintBioinformatics