Kustikova, V;
Krivonosov, M;
Pimashkin, A;
Denisov, P;
Zaikin, A;
Ivanchenko, M;
Meyerov, I;
(2018)
CalciumCV: Computer vision software for calcium signaling in astrocytes.
In:
International Conference on Analysis of Images, Social Networks and Texts.
(pp. pp. 168-179).
Springer: Moscow, Russia.
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Abstract
Developing computational analysis of time-lapse imaging of calcium events in astrocytes is a challenging task in neuroscience. Here we report the implementation of an algorithm that solves this task. After noise reduction with the block-matching and 3D filtering (BM3D) algorithm, calcium activity is identified as fluorescence elevation above the baseline level. Individual events are detected by sliding window approach applied to the variation of pixel intensity relative to the baseline level. The maximal projection and duration of astrocytic calcium events are then assessed. The novelty of the proposed method is an adaptive construction of the baseline level. The statistical results generated by our program are consistent with the previous algorithm reported and used by us for the reference. The software is publicly available.
| Type: | Proceedings paper |
|---|---|
| Title: | CalciumCV: Computer vision software for calcium signaling in astrocytes |
| Event: | AIST: International Conference on Analysis of Images, Social Networks and Texts |
| Location: | Moscow, Russia |
| Dates: | 5–7 July, 2018 |
| ISBN-13: | 9783030110260 |
| Open access status: | An open access version is available from UCL Discovery |
| DOI: | 10.1007/978-3-030-11027-7_17 |
| Publisher version: | https://doi.org/10.1007/978-3-030-11027-7_17 |
| Language: | English |
| Additional information: | This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions. |
| Keywords: | bioinformatics, calcium signaling in astrocytes, computer vision, image analysis, statistical analysis |
| UCL classification: | UCL UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > UCL EGA Institute for Womens Health UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > UCL EGA Institute for Womens Health > Womens Cancer |
| URI: | https://discovery-pp.ucl.ac.uk/id/eprint/10068933 |
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