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Deciphering Tumour Tissue Organization by 3D Electron Microscopy and machine learning

hal.structure.identifierInstitut de Mathématiques de Bordeaux [IMB]
hal.structure.identifierModélisation Mathématique pour l'Oncologie [MONC]
dc.contributor.authorDENIS DE SENNEVILLE, Baudouin
hal.structure.identifierBiothérapies des maladies génétiques et cancers
dc.contributor.authorKHOUBAI, Fatma Zohra
hal.structure.identifierBordeaux Imaging Center [BIC]
dc.contributor.authorBEVILACQUA, Marc
hal.structure.identifierChercheur indépendant
dc.contributor.authorLABEDADE, Alexandre
hal.structure.identifierXenTech [Evry]
dc.contributor.authorFLOSSEAU, Kathleen
hal.structure.identifierHôpital Necker - Enfants Malades [AP-HP]
dc.contributor.authorCHARDOT, Christophe
hal.structure.identifierHôpital Bicêtre [AP-HP, Le Kremlin-Bicêtre]
dc.contributor.authorBRANCHEREAU, Sophie
hal.structure.identifierUniversité de Bordeaux [UB]
hal.structure.identifierBioingénierie tissulaire [BIOTIS]
dc.contributor.authorRIPOCHE, Jean
hal.structure.identifierXenTech [Evry]
hal.structure.identifierIstituto di Ricerca Pediatrica [Padova, Italy] [IRP]
dc.contributor.authorCAIRO, Stefano
hal.structure.identifierBordeaux Imaging Center [BIC]
dc.contributor.authorGONTIER, Etienne
hal.structure.identifierBiothérapies des maladies génétiques et cancers
dc.contributor.authorGROSSET, Christophe
dc.date.issued2021-12-13
dc.identifier.issn2399-3642
dc.description.abstractEnDespite recent progress in the characterization of tumour components, the tri-dimensional (3D) organization of this pathological tissue and the parameters determining its internal architecture remain elusive. Here, we analysed the spatial organization of patient-derived xenograft tissues generated from hepatoblastoma, the most frequent childhood liver tumour, by serial block-face scanning electron microscopy using an integrated workflow combining 3D imaging, manual and machine learning-based semi-automatic segmentations, mathematics and infographics. By digitally reconstituting an entire hepatoblastoma sample with a blood capillary, a bile canaliculus-like structure, hundreds of tumour cells and their main organelles (e.g. cytoplasm, nucleus, mitochondria), we report unique 3D ultrastructural data about the organization of tumoral tissue. We found that the size of hepatoblastoma cells correlates with the size of their nucleus, cytoplasm and mitochondrial mass. We also discovered that the blood capillary controls the planar alignment and size of tumour cells in their 3D milieu. Finally, a set of tumour cells polarized in the direction of a hot spot corresponding to a bile canaliculus-like structure. In conclusion, this pilot study allowed the identification of bioarchitectural parameters that shape the internal and spatial organization of tumours, thus paving the way for new investigations in an emerging field that we call onconanotomy.
dc.language.isoen
dc.publisherNature Publishing Group
dc.rights.urihttp://creativecommons.org/licenses/by/
dc.subject.enCancer
dc.subject.enhepatoblastoma
dc.subject.enpatient-derived xenograft
dc.subject.en3D imaging
dc.subject.enserial blockface scanning electron microscopy
dc.subject.ennanotomy
dc.subject.enmathematics
dc.title.enDeciphering Tumour Tissue Organization by 3D Electron Microscopy and machine learning
dc.typeArticle de revue
dc.identifier.doi10.1038/s42003-021-02919-z
dc.subject.halSciences du Vivant [q-bio]/Ingénierie biomédicale/Imagerie
dc.subject.halMathématiques [math]
dc.subject.halSciences du Vivant [q-bio]/Cancer
dc.subject.halStatistiques [stat]/Machine Learning [stat.ML]
bordeaux.journalCommunications Biology
bordeaux.page1390
bordeaux.volume4
bordeaux.issue1
bordeaux.peerReviewedoui
hal.identifierhal-03263488
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-03263488v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Communications%20Biology&rft.date=2021-12-13&rft.volume=4&rft.issue=1&rft.spage=1390&rft.epage=1390&rft.eissn=2399-3642&rft.issn=2399-3642&rft.au=DENIS%20DE%20SENNEVILLE,%20Baudouin&KHOUBAI,%20Fatma%20Zohra&BEVILACQUA,%20Marc&LABEDADE,%20Alexandre&FLOSSEAU,%20Kathleen&rft.genre=article


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