Accurate Morphology Preserving Segmentation of Overlapping Cells based on Active Contours

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dc.contributor University of Helsinki, Institute for Molecular Medicine Finland en
dc.contributor University of Helsinki, Institute for Molecular Medicine Finland en
dc.contributor University of Helsinki, Institute for Molecular Medicine Finland en
dc.contributor University of Helsinki, Institute for Molecular Medicine Finland en
dc.contributor.author Molnar, Csaba
dc.contributor.author Jermyn, Ian H.
dc.contributor.author Kato, Zoltan
dc.contributor.author Rahkama, Vesa
dc.contributor.author Ostling, Paivi
dc.contributor.author Mikkonen, Piia
dc.contributor.author Pietiainen, Vilja
dc.contributor.author Horvath, Peter
dc.date.accessioned 2016-09-19T09:47:01Z
dc.date.available 2016-09-19T09:47:01Z
dc.date.issued 2016-08-26
dc.identifier.citation Molnar , C , Jermyn , I H , Kato , Z , Rahkama , V , Ostling , P , Mikkonen , P , Pietiainen , V & Horvath , P 2016 , ' Accurate Morphology Preserving Segmentation of Overlapping Cells based on Active Contours ' , Scientific Reports , vol. 6 , 32412 . https://doi.org/10.1038/srep32412 en
dc.identifier.issn 2045-2322
dc.identifier.other PURE: 68765144
dc.identifier.other PURE UUID: aa6e0388-e0c7-4710-808b-df4915ec8fcf
dc.identifier.other WOS: 000381974600001
dc.identifier.other Scopus: 84983804197
dc.identifier.other ORCID: /0000-0003-3125-2406/work/53514280
dc.identifier.uri http://hdl.handle.net/10138/166928
dc.description.abstract The identification of fluorescently stained cell nuclei is the basis of cell detection, segmentation, and feature extraction in high content microscopy experiments. The nuclear morphology of single cells is also one of the essential indicators of phenotypic variation. However, the cells used in experiments can lose their contact inhibition, and can therefore pile up on top of each other, making the detection of single cells extremely challenging using current segmentation methods. The model we present here can detect cell nuclei and their morphology even in high-confluency cell cultures with many overlapping cell nuclei. We combine the "gas of near circles" active contour model, which favors circular shapes but allows slight variations around them, with a new data model. This captures a common property of many microscopic imaging techniques: the intensities from superposed nuclei are additive, so that two overlapping nuclei, for example, have a total intensity that is approximately double the intensity of a single nucleus. We demonstrate the power of our method on microscopic images of cells, comparing the results with those obtained from a widely used approach, and with manual image segmentations by experts. en
dc.format.extent 10
dc.language.iso eng
dc.relation.ispartof Scientific Reports
dc.rights en
dc.subject TREE CROWN EXTRACTION en
dc.subject CANCER en
dc.subject MODELS en
dc.subject MICROSCOPY en
dc.subject CIRCLES en
dc.subject SNAKES en
dc.subject IMAGES en
dc.subject 3111 Biomedicine en
dc.title Accurate Morphology Preserving Segmentation of Overlapping Cells based on Active Contours en
dc.type Article
dc.description.version Peer reviewed
dc.identifier.doi https://doi.org/10.1038/srep32412
dc.type.uri info:eu-repo/semantics/other
dc.type.uri info:eu-repo/semantics/publishedVersion
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