CellMAP: an open-source software tool to batch-process cell topography and stiffness maps collected with an atomic force microscope

Atomic force microscopy (AFM) is the gold-standard technique to simultaneously map the morphology and viscoelastic properties of living cells. Although existing software tools, both open-source and from AFM manufacturers, can analyze cells individually, there is a growing need for fast and accessible codes to compile data from multiple cells into a single dataset. To address this, we present CellMAP, a user-friendly software tool that streamlines the batch-processing of AFM-derived topography and stiffness maps of living cells. Our analysis pipeline includes but is not limited to: flattening of the underlying substrate surface, filtering of outlier values, measurement of the cell surface and volume, and measurement of height and stiffness distributions. CellMAP can also generate a composite cell that reflects the height and stiffness properties of an entire cell population.

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Publication Details

Journal
BMC Bioinformatics
Published
2025-02-04
DOI
https://doi.org/10.1186/s12859-025-06060-0
Primary Topic
Cellular Mechanics and Interactions
Type
article
Field-Weighted Citation Impact
0.00

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article

CellMAP: an open-source software tool to batch-process cell topography and stiffness maps collected with an atomic force microscope

Guillaume Lamour, Clément Campillo, Raphaël Crépin, Olek Maciejak et al.
BMC Bioinformatics
Cellular Mechanics and Interactions
article

CellMAP: an open-source software tool to batch-process cell topography and stiffness maps collected with an atomic force microscope

Guillaume Lamour, Clément Campillo, Raphaël Crépin, Olek Maciejak, Michel Malo, Antoine Allard, S. Labdi, Maxime Liboz
article en

Abstract

Atomic force microscopy (AFM) is the gold-standard technique to simultaneously map the morphology and viscoelastic properties of living cells. Although existing software tools, both open-source and from AFM manufacturers, can analyze cells individually, there is a growing need for fast and accessible codes to compile data from multiple cells into a single dataset. To address this, we present CellMAP, a user-friendly software tool that streamlines the batch-processing of AFM-derived topography and stiffness maps of living cells. Our analysis pipeline includes but is not limited to: flattening of the underlying substrate surface, filtering of outlier values, measurement of the cell surface and volume, and measurement of height and stiffness distributions. CellMAP can also generate a composite cell that reflects the height and stiffness properties of an entire cell population.

BMC BioinformaticsVol. 26(1)
Centre National de la Recherche Scientifique (FR), Université de Bordeaux (FR), Institut Universitaire de France (FR), Université Paris-Saclay (FR), Laboratoire Analyse et Modélisation pour la Biologie et l'Environnement (FR), CY Cergy Paris Université (FR), Laboratoire Ondes et Matière d'Aquitaine (FR), Université d'Évry Val-d'Essonne (FR)
Agence Nationale de la Recherche, Centre National de la Recherche Scientifique, Université de Bordeaux
Openalex Percentile: Top 98%
Cellular Mechanics and Interactions
DOIOpen Access PDFOpenAlex
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