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Volume reconstruction of large tissue specimens from serial physical sections using confocal microscopy and correction of cutting deformations by elastic registration
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SYSNO ASEP 0323668 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Volume reconstruction of large tissue specimens from serial physical sections using confocal microscopy and correction of cutting deformations by elastic registration Title Objemová rekonstrukce velkých biologických tkáňových vzorků ze sériových fyzických řezů s použitím konfokální mikroskopie a korekce deformací elastickou deformací Author(s) Čapek, Martin (FGU-C) RID, ORCID
Brůža, Petr (FGU-C)
Janáček, Jiří (FGU-C) RID, ORCID
Karen, Petr (FGU-C)
Kubínová, Lucie (FGU-C) RID, ORCID
Vagnerová, R. (CZ)Source Title Microscopy Research and Technique - ISSN 1059-910X
Roč. 72, č. 2 (2009), s. 110-119Number of pages 10 s. Language eng - English Country US - United States Keywords 3D reconstruction ; elastic registration ; confocal microscopy Subject RIV JD - Computer Applications, Robotics R&D Projects IAA100110502 GA AV ČR - Academy of Sciences of the Czech Republic (AV ČR) IAA500200510 GA AV ČR - Academy of Sciences of the Czech Republic (AV ČR) GA102/08/0691 GA ČR - Czech Science Foundation (CSF) LC06063 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) CEZ AV0Z50110509 - FGU-C (2005-2011) UT WOS 000263511100008 DOI 10.1002/jemt.20652 Annotation A set of methods leading to volume reconstruction of biological specimens larger than the field of view of a confocal laser scanning microscope (CLSM) is presented. Large tissue specimens are cut into thin physical slices and volume data sets are captured from all studied physical slices by CLSM. Overlapping spatial tiles of the same physical slice are stitched in horizontal direction. Image volumes of successive physical slices are linked in axial direction by applying an elastic registration algorithm to compensate for deformations due to cutting the specimen. We present a method enabling us to keep true object morphology using a-priori information about the shape and size of the specimen, available from images of the cutting planes captured by a USB light microscope immediately before cutting the specimen by a microtome. The errors introduced by elastic registration are evaluated using a stereological point counting method and the Procrustes distance Workplace Institute of Physiology Contact Lucie Trajhanová, lucie.trajhanova@fgu.cas.cz, Tel.: 241 062 400 Year of Publishing 2009
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