Author

Cedric Ly

University Medical Center Hamburg-Eppendorf

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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Bioinformatics· 2 Immunology· 1

Signature Assays, Organisms & Methods

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Assay:spatial transcriptomics· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Approach:experimental assay· 1 Organism:human· 1 Organism:mouse· 1 Research Focus:spatial domain detection· 1

Frequent Co-Authors

Immo PrinziD· 3 shared Stefan BonniD· 3 shared Christian F. KrebsiD· 2 shared Darius P. SchaubiD· 2 shared Robin KhatriiD· 2 shared Annika BoxnickiD· 1 shared Behnam YousefiiD· 1 shared Eva TolosaiD· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 34 mutual co-author links

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3 shared papersBioinformatics

Immo PrinzORCID

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Author profile →

3 papers

Recent·Most cited

SCALE: Unsupervised Multi-Scale Domain Identification in Spatial Omics Data

Behnam Yousefi, Darius P. Schaub, Robin Khatri, Nico Kaiser, Malte B. Kuehl, Cedric Ly, Victor G. Puelles, Tobias B Huber, Immo Prinz, Christian F. Krebs, U. Panzer, Stefan Bonn

SCALE identifies multi-scale functional domains in spatial transcriptomics data using neural graph learning and entropy-based search, achieving state-of-the-art performance on simulated and biological datasets.

Nucleic Acids Research · Jan 5, 2026Peer-reviewedBioinformatics

Spatial Analysis of T Cell Clonality in Autoimmune Kidney Disease Using TRV Probes

Cedric Ly, Darius P. Schaub, Robin Khatri, Zeba Sultana, Annika Boxnick, Song Zheng, Tobias Bruno Huber, Thorsten Wiech, Eva Tolosa, Ulf Panzer, Stefan Bonn, Christian F. Krebs, Immo Prinz

The paper develops an in situ hybridization method to analyze T cell clonality in kidney biopsies and finds spatial clustering of clonally related T cells near antigen-presenting cells.

bioRxiv · Aug 29, 2025 · PreprintImmunology

Performance comparison of TCR-pMHC prediction tools reveals a strong data dependency

Lihua Deng, Cedric Ly, Sina Abdollahi, Yu Zhao, Immo Prinz, Stefan Bonn

The paper compares TCR-pMHC prediction models and finds they lack generalization and robustness due to data dependency.

Frontiers in Immunology · Apr 18, 2023Peer-reviewedBioinformatics