Projects
and research
Our work covers the fields of artificial intelligence, 3D image analysis, organoid imaging, and biomedical innovation.
Our scientific
collaborations
At QuantaCell, we collaborate in a wide range of contexts (academic projects, hospital-based collaborations, industrial partnerships, ANR proposals, including PRC, PRCI and PRCE projects, regional and national calls, European programmes such as Horizon Europe, EIC or ERC, and selected international funding schemes such as NIH, NSF or SBIR/STTR programmes) with an approach that is scientific, methodological and operational. Thanks to our position at the interface between life sciences, imaging, data and software, we help turn complex biological or medical questions into robust, actionable and scientifically valuable analytical workflows.
Do you have a research project in preparation?
We would be delighted to discuss it with you from the earliest stages, to understand your objectives, assess feasibility, and jointly build the most appropriate imaging protocols and quantitative analysis methods.
Montpellier University Hospital – Department of Pathology, France
PI: Vanessa Lacheretz Szablewski
Development of AI tools for digital pathology, including automated grading of head and neck cancers and analysis of mutation-associated tissue patterns.
Institut Curie – Paris, France
PI: Matthieu Piel
Innovative approaches combining microfabrication, advanced microscopy and quantitative image analysis to study cell cycle dynamics in controlled cellular environments.
Centre Léon Bérard – Lyon, France
PIs: Pierre-Etienne Heudel, Hugo Crochet
Integration of whole-body imaging and clinical data to analyze sarcopenia and improve personalized dosing strategies in immunotherapy.
Institute of Mechanobiology – National University of Singapore
PI: Anne Beghin
Development of advanced quantitative analysis methods for 3D cellular models and organoids, leading to major scientific publications including Nature Methods.
IHU Immun4Cure – Montpellier University Hospital, France
PIs: Jérôme Reboul, Kevin Yauy
Participation in the AI4AI project, developing machine learning models integrating multi-omics and clinical data to identify biomarkers for autoimmune diseases.
Our scientific
publications
Nature Methods - May 2025
Digitalized organoids: integrated pipeline for high-speed 3D analysis of organoid structures using multilevel segmentation and cellular topology
Nat Methods.2025 May;22, 1343–1354. doi: 10.1038/s41592-025-02685-4. Epub 2025 May 14. Autors : Hui Ting Ong, Esra Karatas, Titouan Poquillon, Gianluca Grenci, Alessandro Furlan, Florian Dilasser, Saburnisha Binte Mohamad Raffi, Damien Blanc, Elise Drimaracci, Dimitri Mikec, Gaetan Galisot, Blake A. Johnson, Albert Zou Liu, Cora Thiel, Oliver Ullrich, OrgaRES Consortium, Victor Racine & Anne Beghin. Keywords : Organoids, Morphology, Biomedical Research
J Clin Invest - April 2024
Human NLRC4 expression promotes cancer survival and associates with type I interferon signaling and immune infiltration
23,134(11):e166085. doi: 10.1172/JCI166085. Authors : Charlotte Domblides, Steven Crampton, Hong Liu, Juliet M Bartleson, Annie Nguyen, Claudia Champagne, Emily E Landy, Lindsey Spiker, Christopher Proffitt, Sunil Bhattarai, Anissa P Grawe, Matias Fuentealba Valenzuela, Lydia Lartigue, Isabelle Mahouche, Jeremy Dupaul-Chicoine, Kazuho Nishimura, Félix Lefort, Marie Decraecker, Valérie Velasco, Sonia Netzer, Vincent Pitard, Christian Roy, Isabelle Soubeyran, Victor Racine, Patrick Blanco, Julie Déchanet-Merville, Maya Saleh, Scott W Canna, David Furman, Benjamin Faustin. Keywords: Cancer immunotherapy, Cellular immune response, Immunology, Innate immunity, Oncology.
Front nucl med - January 2024
Automatic deep learning method for third lumbar selection and body composition evaluation on CT scans of cancer patients
10,3:1292676. doi: 10.3389/fnume.2023.1292676. eCollection 2023. Authors : Lidia Delrieu, Damien Blanc, Amine Bouhamama, Fabien Reyal, Frank Pilleul, Victor Racine, Anne Sophie Hamy, Hugo Crochet, Timothée Marchal, Pierre Etienne Heudel. Keywords: body composition, cancer; computed tomography, deep learning, sarcopenia.
Nature Methods - July 2022
Automated high-speed 3D imaging of organoid cultures with multi-scale phenotypic quantification
19(7):881-892. doi: 10.1038/s41592-022-01508-0. Epub 2022 Jun 13.Autors : Anne Beghin, Gianluca Grenci, Geetika Sahni, Su Guo, Harini Rajendiran, Tom Delaire, Saburnisha Binte Mohamad Raffi, Damien Blanc, Richard de Mets, Hui Ting Ong, Xareni Galindo, Anais Monet, Vidhyalakshmi Acharya, Victor Racine, Florian Levet, Remi Galland, Jean-Baptiste Sibarita, Virgile Viasnoff. Keywords : 3D imaging, Deep Learning, Quantification.
Diagn Interv Imaging - December 2020
Artificial intelligence solution to classify pulmonary nodules on CT
101(12):803-810. Autors : D Blanc, V Racine, A Khalil, M Deloche, J-A Broyelle, I Hammouamri, E Sinitambirivoutin, M Fiammante, E Verdier, T Besson, A Sadate, M Lederlin, F Laurent, G Chassagnon, G Ferretti, Y Diascorn, P-Y Brillet, Lucie Cassagnes, C Caramella, A Loubet, N Abassebay, P Cuingnet, M Ohana, J Behr, A Ginzac, H Veyssiere, X Durando, I Bousaïd, N Lassau, J Brehant. Keywords : Deep learning, Retina-UNET, 3D U-Net, PyTorch
Transl Psychiatry - October 2020
Mitochondrial morphology is associated with respiratory chain uncoupling in autism spectrum disorder
11(1):527. Autors : RE Frye, L Lionnard, I Singh, MA Karim, H Chajra, M Frechet, K Kissa, V Racine, A Ammanamanchi, PJ McCarty, L Delhey, M Tippett, S Rose, A Aouacheria. Keywords : Cell segmentation, nuclei segmentation, statistics, AssayScope
Methods Cell Biol - January 2017
Fluorescence eXclusion Measurement of volume in live cell
Auteurs : Cadart C, Zlotek-Zlotkiewicz E, Venkova L, Thouvenin O, Racine V, Le Berre M, Monnier S, Piel M. Keywords : Mass analysis. Biophysics, Microfluidcs
Nature Commun - June 2014
Synaptic recruitment of gephyrin regulates surface GABAA receptor dynamics for the expression of inhibitory LTP
Auteurs :Petrini EM, Ravasenga T, Hausrat TJ, Iurilli G, Olcese U, Racine V, Sibarita JB, Jacob TC, Moss SJ, Benfenati F, Medini P, Kneussel M, Barberis A. Keywords : Neuroscience, dynamique des récepteurs, suivi dans le temps, segmentation
Optics Express - January 2012
Wavelet analysis for single molecule localization microscopy
20(3):2081-95. PDF Auteurs :Izeddin I, Boulanger J, Racine V, Specht CG, Kechkar A, Nair D, Triller A, Choquet D, Dahan M, Sibarita JB. Keywords : TIRF/PALM, SPT, détection moléculaire, imagerie avancée, ondelettes, fit gaussien, traitement des images
Molecular Systems Biology - January 2012
RNAi screening reveals a large signaling network controlling the Golgi apparatus in human cells
Auteurs :Chia J, Goh G, Racine V, Ng S, Kumar P, Bard F. Keywords : Criblage phénotypique, structure cellulaire, siRNA, machine learning, statistiques
Nature - May 2007
Experimental and theoretical study of mitotic spindle orientation
447(7143):493-6. Auteurs :Théry M, Jiménez-Dalmaroni A, Racine V, Bornens M, Jülicher F. Keywords : Cellule unique, détection et segmentation de compartiments, adhésion, microscopie automatisée, visualisation des données, modèle théorique, cytosquelette
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