Author

Philipp Mergenthaler

University of OxfordORCID 0000-0002-9753-6711Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Assay:imaging· 3 Approach:statistical model· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Assay:metabolomics· 1 Organism:mouse· 1

Frequent Co-Authors

Alastair Mitchell BuchaniD· 2 shared Amin MottahediniD· 2 shared Paul M. HollowayiD· 2 shared Philipp Boehm‐SturmiD· 2 shared Andreas DannhorniD· 1 shared Daniel J. BeardiD· 1 shared Elena Marie KirschiD· 1 shared Erico Tosoni CostaiD· 1 shared

Activity by Year

2021-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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2 shared papersNeuroscience

Alastair Mitchell BuchanORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

SPC-Clean: A napari Plugin for Reducing Speckle and Isolated Pixel Noise in Fluorescence Microscopy Images

Pendar Alirezazadeh, Elena Marie Kirsch, Yuan Tian, Joerg Bewersdorf, Jens Rittscher, Philipp Mergenthaler

SPC-Clean reduces speckle and isolated pixel noise in fluorescence microscopy images using a topology-aware method without altering fluorescence intensities.

bioRxiv · Aug 27, 2026 · PreprintBioinformatics

Multimodal molecular profiling of the metabolic penumbra in hyperacute stroke

Amin Mottahedin, Yvonne Couch, Paul M. Holloway, Philipp Mergenthaler, Philipp Boehm‐Sturm, Moustafa Attar, Russell Foster, Andreas Dannhorn, Alastair Mitchell Buchan

The paper identifies a metabolically defined penumbra in hyperacute stroke using multimodal molecular profiling in a mouse model.

bioRxiv · Jul 4, 2026 · PreprintNeuroscience

2-deoxy-D-glucose chemical exchange-sensitive spin-lock MRI of cerebral glucose metabolism after stroke in the rat

Philipp Boehm‐Sturm, Patrick Schuenke, Marco Foddis, Susanne G. Mueller, Stefan Koch, Daniel J. Beard, Paul M. Holloway, Amin Mottahedin, Leif Schröder, Alastair Mitchell Buchan, Philipp Mergenthaler

This study develops a new MRI protocol using 2DG-CESL to measure glucose metabolism in a rat stroke model and shows it provides a biomarker of disturbed metabolism with high effect size.

Journal of Cerebral Blood Flow & Metabolism · Jul 8, 2025Peer-reviewedNeuroscience

FRC-QE: A robust and comparable 3D microscopy image quality metric for cleared organoids

Friedrich Preußer, Natália dos Santos, Jörg Contzen, Harald Stachelscheid, Erico Tosoni Costa, Philipp Mergenthaler, Stephan Preibisch

This paper introduces FRC-QE, a 3D image quality metric for cleared organoids, showing it robustly captures clearing efficiency differences across protocols and microscopy modalities.

Bioinformatics · Mar 4, 2021Peer-reviewedBioinformatics