An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model
Autor(a) principal: | |
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Data de Publicação: | 2015 |
Outros Autores: | , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
Texto Completo: | http://hdl.handle.net/10316/109234 https://doi.org/10.1186/s13024-015-0005-z |
Resumo: | The fruitfly compound eye has been broadly used as a model for neurodegenerative diseases. Classical quantitative techniques to estimate the degeneration level of an eye under certain experimental conditions rely either on time consuming histological techniques to measure retinal thickness, or pseudopupil visualization and manual counting. Alternatively, visual examination of the eye surface appearance gives only a qualitative approximation provided the observer is well-trained. Therefore, there is a need for a simplified and standardized analysis of fruitfly eye degeneration extent for both routine laboratory use and for automated high-throughput analysis. We have designed the freely available ImageJ plugin FLEYE, a novel and user-friendly method for quantitative unbiased evaluation of neurodegeneration levels based on the acquisition of fly eye surface pictures. The incorporation of automated image analysis tools and a classification algorithm sustained on a built-in statistical model allow the user to quickly analyze large sample size data with reliability and robustness. Pharmacological screenings or genetic studies using the Drosophila retina as a model system may benefit from our method, because it can be easily implemented in a fully automated environment. In addition, FLEYE can be trained to optimize the image detection capabilities, resulting in a versatile approach to evaluate the pattern regularity of other biological or non-biological samples and their experimental or pathological disruption. |
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An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative modelEye classifierImageJ pluginNeurodegenerationOmmatidiaAnimalsBehavior, AnimalDisease Models, AnimalDrosophila melanogasterImage Processing, Computer-AssistedModels, BiologicalReproducibility of ResultsRetinaThe fruitfly compound eye has been broadly used as a model for neurodegenerative diseases. Classical quantitative techniques to estimate the degeneration level of an eye under certain experimental conditions rely either on time consuming histological techniques to measure retinal thickness, or pseudopupil visualization and manual counting. Alternatively, visual examination of the eye surface appearance gives only a qualitative approximation provided the observer is well-trained. Therefore, there is a need for a simplified and standardized analysis of fruitfly eye degeneration extent for both routine laboratory use and for automated high-throughput analysis. We have designed the freely available ImageJ plugin FLEYE, a novel and user-friendly method for quantitative unbiased evaluation of neurodegeneration levels based on the acquisition of fly eye surface pictures. The incorporation of automated image analysis tools and a classification algorithm sustained on a built-in statistical model allow the user to quickly analyze large sample size data with reliability and robustness. Pharmacological screenings or genetic studies using the Drosophila retina as a model system may benefit from our method, because it can be easily implemented in a fully automated environment. In addition, FLEYE can be trained to optimize the image detection capabilities, resulting in a versatile approach to evaluate the pattern regularity of other biological or non-biological samples and their experimental or pathological disruption.Springer Nature2015-03-12info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlehttp://hdl.handle.net/10316/109234http://hdl.handle.net/10316/109234https://doi.org/10.1186/s13024-015-0005-zeng1750-1326Diez-Hermano, SergioValero, JorgeRueda, CristinaGanfornina, Maria D.Santos Sánchez, Diegoinfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-10-04T10:29:26Zoai:estudogeral.uc.pt:10316/109234Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T21:25:27.187485Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
dc.title.none.fl_str_mv |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
title |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
spellingShingle |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model Diez-Hermano, Sergio Eye classifier ImageJ plugin Neurodegeneration Ommatidia Animals Behavior, Animal Disease Models, Animal Drosophila melanogaster Image Processing, Computer-Assisted Models, Biological Reproducibility of Results Retina |
title_short |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
title_full |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
title_fullStr |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
title_full_unstemmed |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
title_sort |
An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model |
author |
Diez-Hermano, Sergio |
author_facet |
Diez-Hermano, Sergio Valero, Jorge Rueda, Cristina Ganfornina, Maria D. Santos Sánchez, Diego |
author_role |
author |
author2 |
Valero, Jorge Rueda, Cristina Ganfornina, Maria D. Santos Sánchez, Diego |
author2_role |
author author author author |
dc.contributor.author.fl_str_mv |
Diez-Hermano, Sergio Valero, Jorge Rueda, Cristina Ganfornina, Maria D. Santos Sánchez, Diego |
dc.subject.por.fl_str_mv |
Eye classifier ImageJ plugin Neurodegeneration Ommatidia Animals Behavior, Animal Disease Models, Animal Drosophila melanogaster Image Processing, Computer-Assisted Models, Biological Reproducibility of Results Retina |
topic |
Eye classifier ImageJ plugin Neurodegeneration Ommatidia Animals Behavior, Animal Disease Models, Animal Drosophila melanogaster Image Processing, Computer-Assisted Models, Biological Reproducibility of Results Retina |
description |
The fruitfly compound eye has been broadly used as a model for neurodegenerative diseases. Classical quantitative techniques to estimate the degeneration level of an eye under certain experimental conditions rely either on time consuming histological techniques to measure retinal thickness, or pseudopupil visualization and manual counting. Alternatively, visual examination of the eye surface appearance gives only a qualitative approximation provided the observer is well-trained. Therefore, there is a need for a simplified and standardized analysis of fruitfly eye degeneration extent for both routine laboratory use and for automated high-throughput analysis. We have designed the freely available ImageJ plugin FLEYE, a novel and user-friendly method for quantitative unbiased evaluation of neurodegeneration levels based on the acquisition of fly eye surface pictures. The incorporation of automated image analysis tools and a classification algorithm sustained on a built-in statistical model allow the user to quickly analyze large sample size data with reliability and robustness. Pharmacological screenings or genetic studies using the Drosophila retina as a model system may benefit from our method, because it can be easily implemented in a fully automated environment. In addition, FLEYE can be trained to optimize the image detection capabilities, resulting in a versatile approach to evaluate the pattern regularity of other biological or non-biological samples and their experimental or pathological disruption. |
publishDate |
2015 |
dc.date.none.fl_str_mv |
2015-03-12 |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/10316/109234 http://hdl.handle.net/10316/109234 https://doi.org/10.1186/s13024-015-0005-z |
url |
http://hdl.handle.net/10316/109234 https://doi.org/10.1186/s13024-015-0005-z |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
1750-1326 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.publisher.none.fl_str_mv |
Springer Nature |
publisher.none.fl_str_mv |
Springer Nature |
dc.source.none.fl_str_mv |
reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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RCAAP |
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RCAAP |
reponame_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
collection |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
repository.name.fl_str_mv |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
repository.mail.fl_str_mv |
|
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1799134137452331008 |