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Automatic image-based method for quantitative analysis of photosynthetic cell cultures

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dc.title Automatic image-based method for quantitative analysis of photosynthetic cell cultures en
dc.contributor.author Vlachynská, Alžběta
dc.contributor.author Červený, Jan
dc.contributor.author Čmiel, Vratislav
dc.contributor.author Tureček, Tomáš
dc.relation.ispartof Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
dc.identifier.issn 0302-9743 Scopus Sources, Sherpa/RoMEO, JCR
dc.identifier.isbn 978-3-319-32033-5
dc.identifier.isbn 978-3-319-32034-2
dc.date.issued 2016
utb.relation.volume 9648
dc.citation.spage 402
dc.citation.epage 413
dc.event.title 11th International Conference on Hybrid Artificial Intelligent Systems, HAIS 2016
dc.event.location Seville
utb.event.state-en Spain
utb.event.state-cs Španělsko
dc.event.sdate 2016-04-08
dc.event.edate 2016-04-20
dc.type conferenceObject
dc.language.iso en
dc.publisher Springer Verlag
dc.identifier.doi 10.1007/978-3-319-32034-2_34
dc.relation.uri https://link.springer.com/chapter/10.1007/978-3-319-32034-2_34
dc.subject 3D reconstruction en
dc.subject Automated cell counting en
dc.subject Image segmentation en
dc.subject Plant cell en
dc.subject Suspension cultures en
dc.subject Visualization en
dc.description.abstract This work deals with an automatic quantitative analysis of photosynthetic cell cultures. It uses images captured by a confocal fluorescent microscope for automatic determination the number of cells in sample containing complex 3D structure of cell clusters. Experiments were performed on the confocal microscope Leica TCS SP8 X. The cell nuclei were stained by SYBR® Green fluorescent DNA binding marker. In the first step we used combination of adaptive thresholding to found out areas where nuclei were located. Proposed segmentation steps allowed reduction of noise and artefacts. Z-axis position was obtained as a location of peak from intensity profile. Finally model of scene can be created by emplacement of spheres with adequate diameter to found 3D coordinates. Number of cells per volumetric unit were determined in structurally different culture samples of cell cultures Chenopodium rubrum (Cr) and Solanum lycopersicum (To). The results were verified by manual counting. © Springer International Publishing Switzerland 2016. en
utb.faculty Faculty of Applied Informatics
dc.identifier.uri http://hdl.handle.net/10563/1006454
utb.identifier.obdid 43875333
utb.identifier.scopus 2-s2.0-84964040128
utb.identifier.wok 000389499600034
utb.source d-scopus
dc.date.accessioned 2016-07-26T14:58:33Z
dc.date.available 2016-07-26T14:58:33Z
utb.contributor.internalauthor Vlachynská, Alžběta
utb.contributor.internalauthor Tureček, Tomáš
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