Publication:
Tracing low-level structures in cryo-electron tomography

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dc.contributor.authorAlvarez Brecht, Pelayo
dc.contributor.authorAguilar-Martínez, Francisco
dc.contributor.authorBiertümpfe, Christian
dc.contributor.authorDiaz, Irene
dc.contributor.authorMizuno, Naoko
dc.contributor.authorMartínez-Sánchez, Antonio
dc.contributor.departmentIngeniería de la Información y las Comunicaciones
dc.contributor.otherFacultades de la UMU::Facultad de Informática
dc.date.accessioned2026-01-16T10:00:04Z
dc.date.available2026-01-16T10:00:04Z
dc.date.copyright© 2025 los autores
dc.date.issued2025-12-12
dc.description.abstractCryo-electron tomography is an imaging technique that provides 3D images (tomograms) in situ of cells with sub-nanometer resolution. Typically, the first step in the analysis is to classify the tomogram voxels into different structures, named semantic segmentation. However, the segmentation results are sets of voxels, hindering further quantitative analysis. In this paper, we define and implement algorithms to convert the semantic segmentation of the main structures in a cellular cryo-electron tomogram (membranes, filaments, cytosolic and membrane-bound macromolecules) into specific skeletons, preserving their topological and geometrical information. Additionally, we have defined a metric for comparing segmentations in cryo-ET coming from different methods more robust than the standard DICE. We also demonstrate how this approach can be used to trace cellular features by analyzing several in situ cellular cryo-electron tomograms.
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dc.identifier.citationPLoS One 20(12): e0338502
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0338502
dc.identifier.eissn1932-6203
dc.identifier.urihttp://hdl.handle.net/10201/187494
dc.languageeng
dc.publisherPublic Library of Science
dc.relationA.M-S. is supported by grants RYC2021-032626-I funded by MICIU/AEI/10.13039/501100011033 and the European Union by NextGenerationEU/PRTR, and the project PID2023-151075OA-I00 funded by MICIU/AEI/10.13039/501100011033 and FEDER, UE. A.M-S. is also supported by grant FS/10.13039/100007801 (22686/PI/24) Spain funded by Fundación Séneca and the Universidad de Murcia through its program AttractRyC 2023. A.M-S. and F.A.M. are supported by grant CNS2023-144921 funded by MICIU/AEI/10.13039/501100011033 and the European Union by NextGenerationEU/PRTR. I.D. is supported by grants SEK-25-GRU-GIC-24-018 funded by the Asturias Government, PID2022-139886NB-I00 funded by MICINN/AEI/10.13039/501100011033.
dc.relation.publisherversionhttps://journals.plos.org/plosone/article?id=10.1371/journal.pone.0338502
dc.rightsAttribution 4.0 International*
dc.rights.accessRightsinfo:eu-repo/semantics/openAccess
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.subject.odsNo relacionado con ningún objetivo de desarrollo sostenible
dc.titleTracing low-level structures in cryo-electron tomography
dc.typeinfo:eu-repo/semantics/article
dc.type.versioninfo:eu-repo/semantics/publishedVersion
dspace.entity.typePublicationes
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