Author

Eloise Withnell

University College LondonORCID 0000-0002-7368-5149Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 4 Assay:spatial transcriptomics· 4 Approach:statistical model· 4 Approach:deep learning· 3 Assay:scRNA-seq· 3 Research Focus:cell type annotation· 2 Research Focus:cell-cell communication· 2 Research Focus:differential expression· 2

Frequent Co-Authors

Maria SecrieriD· 5 shared Cenk CelikiD· 3 shared Pan ShiiD· 2 shared Anniina FärkkiläiD· 1 shared Antti ElloneniD· 1 shared Caitlin E. MillsiD· 1 shared Inga-Maria P. LaunoneniD· 1 shared Jia‐Ren LiniD· 1 shared

Activity by Year

2023-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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5 shared papersBioinformatics

Maria SecrierORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

Integrative single-cell and spatial mapping of oxidative stress response uncovers GCLC+ mesenchymal tumor cell state linked with favorable outcomes in triple negative breast cancer

Nomeda Girnius, Tuulia Vallius, Wenqing Chen, Inga-Maria P. Launonen, Sara Palomino‐Echeverría, Jia‐Ren Lin, Caitlin E. Mills, Saila Kauppila, Pauliina Kronqvist, Antti Ellonen, Merja Perälä, Eloise Withnell, Yu‐An Chen, Maria Secrier, Sandro Santagata, , Anniina Färkkilä

The paper maps oxidative stress response in TNBC using single-cell and spatial data, identifying GCLC+ mesenchymal tumor cells linked to better patient outcomes.

bioRxiv · Nov 6, 2025 · PreprintCancer Biology

Integrative Spatial Modelling of Cellular Plasticity using Graph Neural Networks and Geostatistics

Eloise Withnell, Cenk Celik, Maria Secrier

The paper introduces a framework combining graph neural networks and geostatistics to predict and explain cell state variation in spatial transcriptomics data, showing mesenchymal states are stabilized by genetic and environmental factors while hybrid states remain plastic.

bioRxiv · Sep 24, 2025 · PreprintBioinformatics

Balancing tumour proliferation and sustained cell cycle arrest through proteostasis remodelling drives immune niche compartmentalisation in breast cancer

Cenk Celik, Eloise Withnell, Pan Shi, T. Ming Chu, John P. Labbadia, Maria Secrier

The paper quantifies G0 arrest and proliferation in breast cancer using single-cell and spatial data, identifying a prolonged G0 state and its spatial organization within an immunosuppressive niche.

bioRxiv · Jan 8, 2025 · PreprintCancer Biology

From cell types to cell states: adapting foundation models for cellular plasticity

Pan Shi, Eloise Withnell, Cenk Celik, Maria Secrier

This study evaluates single-cell foundation models for modeling cellular plasticity, finding they can improve state resolution but are limited by domain shifts and complexity.

bioRxiv · Aug 16, 2024 · PreprintBioinformatics

SpottedPy quantifies relationships between spatial transcriptomic hotspots and uncovers new environmental cues of epithelial-mesenchymal plasticity in cancer

Eloise Withnell, Maria Secrier

SpottedPy identifies spatial transcriptomic hotspots and reveals environmental cues linked to epithelial-mesenchymal plasticity in breast cancer.

bioRxiv · Dec 20, 2023 · PreprintBioinformatics