Author

Claire Callahan

Harvard UniversityORCID 0009-0002-9138-4689Unclaimed 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 Research Focus:clustering· 2 Assay:spatial transcriptomics· 2 Approach:deep learning· 1 Approach:machine learning (classical)· 1 Organism:mouse· 1 Assay:snRNA-seq· 1

Frequent Co-Authors

Francesca Viggiani· 2 shared Jian ShuiD· 2 shared Ke ZhangiD· 2 shared Bruce J. AronowiD· 1 shared Chia-Kang Ho· 1 shared Francesco Monticolo· 1 shared Haochun Huang· 1 shared Hemali Phatnani· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 35 mutual co-author links

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2 shared papersSystems Biology

Francesca Viggiani

Mutual co-authors in cluster

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2 papers

Recent·Most cited

Systems BiologybioRxivPreprintDec 8, 2025

RamanOmics Decodes Spatial Vibrational-Molecular Architecture and Rewiring in Aging and Repair

Ke Zhang, Xingjian Chen, Francesco Monticolo…·Jian Shu

RamanOmics integrates snRNA-seq, spatial transcriptomics, and Raman imaging to map spatial biochemical and molecular changes in aging and repair, identifying senescent cell signatures and their functional roles.

3 citations

mousesnRNA-seq

𝕏 PostBluesky

BioinformaticsNature CommunicationsPeer-reviewedJul 18, 2025

Bering: joint cell segmentation and annotation for spatial transcriptomics with transferred graph embeddings

Kang Jin, Zuobai Zhang, Ke Zhang…·Jian Shu

Bering improves cell segmentation and annotation in spatial transcriptomics by using graph embeddings and transfer learning, achieving better accuracy across different technologies and tissues.

25 citationstop 3%

spatial transcriptomicsdeep learning

𝕏 PostBluesky