PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.

Neutrophil migration in zebrafish larvae is increasingly used as a model to study the response of these leukocytes to different determinants of the cellular inflammatory response. However, it remains challenging to extract comprehensive information describing the behaviour of neutrophils from the mu...

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Autores principales:	Katherine M Henry, Luke Pase, Carlos Fernando Ramos-Lopez, Graham J Lieschke, Stephen A Renshaw, Constantino Carlos Reyes-Aldasoro
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/958868e2cee043b4b8b962d2ca34ec99
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spelling	oai:doaj.org-article:958868e2cee043b4b8b962d2ca34ec992021-11-18T08:57:37ZPhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.1932-620310.1371/journal.pone.0072636https://doaj.org/article/958868e2cee043b4b8b962d2ca34ec992013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24023630/?tool=EBIhttps://doaj.org/toc/1932-6203Neutrophil migration in zebrafish larvae is increasingly used as a model to study the response of these leukocytes to different determinants of the cellular inflammatory response. However, it remains challenging to extract comprehensive information describing the behaviour of neutrophils from the multi-dimensional data sets acquired with widefield or confocal microscopes. Here, we describe PhagoSight, an open-source software package for the segmentation, tracking and visualisation of migrating phagocytes in three dimensions. The algorithms in PhagoSight extract a large number of measurements that summarise the behaviour of neutrophils, but that could potentially be applied to any moving fluorescent cells. To derive a useful panel of variables quantifying aspects of neutrophil migratory behaviour, and to demonstrate the utility of PhagoSight, we evaluated changes in the volume of migrating neutrophils. Cell volume increased as neutrophils migrated towards the wound region of injured zebrafish. PhagoSight is openly available as MATLAB® m-files under the GNU General Public License. Synthetic data sets and a comprehensive user manual are available from http://www.phagosight.org.Katherine M HenryLuke PaseCarlos Fernando Ramos-LopezGraham J LieschkeStephen A RenshawConstantino Carlos Reyes-AldasoroPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 8, p e72636 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Katherine M Henry Luke Pase Carlos Fernando Ramos-Lopez Graham J Lieschke Stephen A Renshaw Constantino Carlos Reyes-Aldasoro PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
description	Neutrophil migration in zebrafish larvae is increasingly used as a model to study the response of these leukocytes to different determinants of the cellular inflammatory response. However, it remains challenging to extract comprehensive information describing the behaviour of neutrophils from the multi-dimensional data sets acquired with widefield or confocal microscopes. Here, we describe PhagoSight, an open-source software package for the segmentation, tracking and visualisation of migrating phagocytes in three dimensions. The algorithms in PhagoSight extract a large number of measurements that summarise the behaviour of neutrophils, but that could potentially be applied to any moving fluorescent cells. To derive a useful panel of variables quantifying aspects of neutrophil migratory behaviour, and to demonstrate the utility of PhagoSight, we evaluated changes in the volume of migrating neutrophils. Cell volume increased as neutrophils migrated towards the wound region of injured zebrafish. PhagoSight is openly available as MATLAB® m-files under the GNU General Public License. Synthetic data sets and a comprehensive user manual are available from http://www.phagosight.org.
format	article
author	Katherine M Henry Luke Pase Carlos Fernando Ramos-Lopez Graham J Lieschke Stephen A Renshaw Constantino Carlos Reyes-Aldasoro
author_facet	Katherine M Henry Luke Pase Carlos Fernando Ramos-Lopez Graham J Lieschke Stephen A Renshaw Constantino Carlos Reyes-Aldasoro
author_sort	Katherine M Henry
title	PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
title_short	PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
title_full	PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
title_fullStr	PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
title_full_unstemmed	PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
title_sort	phagosight: an open-source matlab® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/958868e2cee043b4b8b962d2ca34ec99
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PhagoSight: an open-source MATLAB® package for the analysis of fluorescent neutrophil and macrophage migration in a zebrafish model.

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