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CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis

Comet assay provides an easy solution to estimate DNA damage in single cells through microscopy assessment. It is widely used in the analysis of genotoxic damages induced by radiotherapy or chemotherapeutic agents. DNA damage is quantified at the single-cell level by computing the displacement betwe...

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Autores principales: Beleon, Attila, Pignatta, Sara, Arienti, Chiara, Carbonaro, Antonella, Horvath, Peter, Martinelli, Giovanni, Castellani, Gastone, Tesei, Anna, Piccinini, Filippo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Research Network of Computational and Structural Biotechnology 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9385450/
https://www.ncbi.nlm.nih.gov/pubmed/36016714
http://dx.doi.org/10.1016/j.csbj.2022.07.053
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author Beleon, Attila
Pignatta, Sara
Arienti, Chiara
Carbonaro, Antonella
Horvath, Peter
Martinelli, Giovanni
Castellani, Gastone
Tesei, Anna
Piccinini, Filippo
author_facet Beleon, Attila
Pignatta, Sara
Arienti, Chiara
Carbonaro, Antonella
Horvath, Peter
Martinelli, Giovanni
Castellani, Gastone
Tesei, Anna
Piccinini, Filippo
author_sort Beleon, Attila
collection PubMed
description Comet assay provides an easy solution to estimate DNA damage in single cells through microscopy assessment. It is widely used in the analysis of genotoxic damages induced by radiotherapy or chemotherapeutic agents. DNA damage is quantified at the single-cell level by computing the displacement between the genetic material within the nucleus, typically called “comet head”, and the genetic material in the surrounding part of the cell, considered as the “comet tail”. Today, the number of works based on Comet Assay analyses is really impressive. In this work, besides revising the solutions available to obtain reproducible and reliable quantitative data, we developed an easy-to-use tool named CometAnalyser. It is designed for the analysis of both fluorescent and silver-stained wide-field microscopy images and allows to automatically segment and classify the comets, besides extracting Tail Moment and several other intensity/morphological features for performing statistical analysis. CometAnalyser is an open-source deep-learning tool. It works with Windows, Macintosh, and UNIX-based systems. Source code, standalone versions, user manual, sample images, video tutorial and further documentation are freely available at: https://sourceforge.net/p/cometanalyser.
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spelling pubmed-93854502022-08-24 CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis Beleon, Attila Pignatta, Sara Arienti, Chiara Carbonaro, Antonella Horvath, Peter Martinelli, Giovanni Castellani, Gastone Tesei, Anna Piccinini, Filippo Comput Struct Biotechnol J Research Article Comet assay provides an easy solution to estimate DNA damage in single cells through microscopy assessment. It is widely used in the analysis of genotoxic damages induced by radiotherapy or chemotherapeutic agents. DNA damage is quantified at the single-cell level by computing the displacement between the genetic material within the nucleus, typically called “comet head”, and the genetic material in the surrounding part of the cell, considered as the “comet tail”. Today, the number of works based on Comet Assay analyses is really impressive. In this work, besides revising the solutions available to obtain reproducible and reliable quantitative data, we developed an easy-to-use tool named CometAnalyser. It is designed for the analysis of both fluorescent and silver-stained wide-field microscopy images and allows to automatically segment and classify the comets, besides extracting Tail Moment and several other intensity/morphological features for performing statistical analysis. CometAnalyser is an open-source deep-learning tool. It works with Windows, Macintosh, and UNIX-based systems. Source code, standalone versions, user manual, sample images, video tutorial and further documentation are freely available at: https://sourceforge.net/p/cometanalyser. Research Network of Computational and Structural Biotechnology 2022-08-03 /pmc/articles/PMC9385450/ /pubmed/36016714 http://dx.doi.org/10.1016/j.csbj.2022.07.053 Text en © 2022 The Author(s) https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Research Article
Beleon, Attila
Pignatta, Sara
Arienti, Chiara
Carbonaro, Antonella
Horvath, Peter
Martinelli, Giovanni
Castellani, Gastone
Tesei, Anna
Piccinini, Filippo
CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
title CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
title_full CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
title_fullStr CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
title_full_unstemmed CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
title_short CometAnalyser: A user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
title_sort cometanalyser: a user-friendly, open-source deep-learning microscopy tool for quantitative comet assay analysis
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9385450/
https://www.ncbi.nlm.nih.gov/pubmed/36016714
http://dx.doi.org/10.1016/j.csbj.2022.07.053
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