An interactive and intuitive visualisation method for X-ray computed tomography data of biological samples in 3D Portable Document Format

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dc.contributor.authorKaiser, Markétacs
dc.contributor.authorHeude, Eglantinecs
dc.contributor.authorComai, Glendacs
dc.contributor.authorZikmund, Tomášcs
dc.contributor.authorKaucká, Markétacs
dc.contributor.authorAdameyko, Igorcs
dc.contributor.authorTajbakhsh, Shahragimcs
dc.contributor.authorKaiser, Jozefcs
dc.coverage.issue9cs
dc.coverage.volume2019cs
dc.date.issued2019-10-17cs
dc.description.abstract3D imaging approaches based on X-ray microcomputed tomography (microCT) have become increasingly accessible with advancements in methods, instruments and expertise. The synergy of material and life sciences has impacted biomedical research by proposing new tools for investigation. However, data sharing remains challenging as microCT files are usually in the range of gigabytes and require specific and expensive software for rendering and interpretation. Here, we provide an advanced method for visualisation and interpretation of microCT data with small file formats, readable on all operating systems, using freely available Portable Document Format (PDF) software. Our method is based on the conversion of volumetric data into interactive 3D PDF, allowing rotation, movement, magnification and setting modifications of objects, thus providing an intuitive approach to analyse structures in a 3D context. We describe the complete pipeline from data acquisition, data processing and compression, to 3D PDF formatting on an example of craniofacial anatomical morphology in the mouse embryo. Our procedure is widely applicable in biological research and can be used as a framework to analyse volumetric data from any research field relying on 3D rendering and CT-biomedical imaging.en
dc.formattextcs
dc.format.extent1-8cs
dc.format.mimetypeapplication/pdfcs
dc.identifier.citationScientific Reports. 2019, vol. 2019, issue 9, p. 1-8.en
dc.identifier.doi10.1038/s41598-019-51180-2cs
dc.identifier.issn2045-2322cs
dc.identifier.orcid0000-0002-5200-7365cs
dc.identifier.orcid0000-0003-2948-5198cs
dc.identifier.orcid0000-0002-7397-125Xcs
dc.identifier.other159285cs
dc.identifier.researcheridV-3696-2018cs
dc.identifier.researcheridG-9491-2014cs
dc.identifier.researcheridD-6800-2012cs
dc.identifier.scopus7402184758cs
dc.identifier.urihttp://hdl.handle.net/11012/181090
dc.language.isoencs
dc.publisherSpringer Naturecs
dc.relation.ispartofScientific Reportscs
dc.relation.urihttps://www.nature.com/articles/s41598-019-51180-2#article-infocs
dc.rightsCreative Commons Attribution 4.0 Internationalcs
dc.rights.accessopenAccesscs
dc.rights.sherpahttp://www.sherpa.ac.uk/romeo/issn/2045-2322/cs
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/cs
dc.subjectCTen
dc.subjectimagingen
dc.subject3Den
dc.subjectPortable Document Formaten
dc.subject3D PDFen
dc.titleAn interactive and intuitive visualisation method for X-ray computed tomography data of biological samples in 3D Portable Document Formaten
dc.type.driverarticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen
sync.item.dbidVAV-159285en
sync.item.dbtypeVAVen
sync.item.insts2025.02.03 16:10:23en
sync.item.modts2025.01.17 16:42:30en
thesis.grantorVysoké učení technické v Brně. Středoevropský technologický institut VUT. Pokročilé instrumentace a metody pro charakterizace materiálůcs
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