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Automated detection of fluorescent cells in in-resin fluorescence sections for integrated light and electron microscopy

Delpiano, J; Pizarro, L; Peddie, CJ; Jones, ML; Griffin, LD; Collinson, LM; (2018) Automated detection of fluorescent cells in in-resin fluorescence sections for integrated light and electron microscopy. Journal of Microscopy , 271 (1) pp. 109-119. 10.1111/jmi.12700. Green open access

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Abstract

Integrated array tomography combines fluorescence and electron imaging of ultrathin sections in one microscope, and enables accurate high-resolution correlation of fluorescent proteins to cell organelles and membranes. Large numbers of serial sections can be imaged sequentially to produce aligned volumes from both imaging modalities, thus producing enormous amounts of data that must be handled and processed using novel techniques. Here, we present a scheme for automated detection of fluorescent cells within thin resin sections, which could then be used to drive automated electron image acquisition from target regions via 'smart tracking'. The aim of this work is to aid in optimization of the data acquisition process through automation, freeing the operator to work on other tasks and speeding up the process, while reducing data rates by only acquiring images from regions of interest. This new method is shown to be robust against noise and able to deal with regions of low fluorescence.

Type: Article
Title: Automated detection of fluorescent cells in in-resin fluorescence sections for integrated light and electron microscopy
Open access status: An open access version is available from UCL Discovery
DOI: 10.1111/jmi.12700
Publisher version: https://doi.org/10.1111/jmi.12700
Language: English
Additional information: Copyright © 2018 The Authors. This is an open access article under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
Keywords: Cell segmentation, correlative light and electron microscopy, image processing, integrated light and electron microscopy, in-resin fluorescence, watershed algorithm
UCL classification: UCL
UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > UCL BEAMS
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science > Dept of Computer Science
URI: https://discovery.ucl.ac.uk/id/eprint/10048147
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