A micro-CT-based method for quantitative brain lesion characterization and electrode localization

Abstract Lesion verification and quantification is traditionally done via histological examination of sectioned brains, a time-consuming process that relies heavily on manual estimation. Such methods are particularly problematic in posterior cortical regions (e.g. visual cortex), where sectioning le...

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Autores principales:	Javier Masís, David Mankus, Steffen B. E. Wolff, Grigori Guitchounts, Maximilian Joesch, David D. Cox
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/7beaf43883cb4e8e922e8fd11203a2f5
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spelling	oai:doaj.org-article:7beaf43883cb4e8e922e8fd11203a2f52021-12-02T15:09:01ZA micro-CT-based method for quantitative brain lesion characterization and electrode localization10.1038/s41598-018-23247-z2045-2322https://doaj.org/article/7beaf43883cb4e8e922e8fd11203a2f52018-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-23247-zhttps://doaj.org/toc/2045-2322Abstract Lesion verification and quantification is traditionally done via histological examination of sectioned brains, a time-consuming process that relies heavily on manual estimation. Such methods are particularly problematic in posterior cortical regions (e.g. visual cortex), where sectioning leads to significant damage and distortion of tissue. Even more challenging is the post hoc localization of micro-electrodes, which relies on the same techniques, suffers from similar drawbacks and requires even higher precision. Here, we propose a new, simple method for quantitative lesion characterization and electrode localization that is less labor-intensive and yields more detailed results than conventional methods. We leverage staining techniques standard in electron microscopy with the use of commodity micro-CT imaging. We stain whole rat and zebra finch brains in osmium tetroxide, embed these in resin and scan entire brains in a micro-CT machine. The scans result in 3D reconstructions of the brains with section thickness dependent on sample size (12–15 and 5–6 microns for rat and zebra finch respectively) that can be segmented manually or automatically. Because the method captures the entire intact brain volume, comparisons within and across studies are more tractable, and the extent of lesions and electrodes may be studied with higher accuracy than with current methods.Javier MasísDavid MankusSteffen B. E. WolffGrigori GuitchountsMaximilian JoeschDavid D. CoxNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-14 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Javier Masís David Mankus Steffen B. E. Wolff Grigori Guitchounts Maximilian Joesch David D. Cox A micro-CT-based method for quantitative brain lesion characterization and electrode localization
description	Abstract Lesion verification and quantification is traditionally done via histological examination of sectioned brains, a time-consuming process that relies heavily on manual estimation. Such methods are particularly problematic in posterior cortical regions (e.g. visual cortex), where sectioning leads to significant damage and distortion of tissue. Even more challenging is the post hoc localization of micro-electrodes, which relies on the same techniques, suffers from similar drawbacks and requires even higher precision. Here, we propose a new, simple method for quantitative lesion characterization and electrode localization that is less labor-intensive and yields more detailed results than conventional methods. We leverage staining techniques standard in electron microscopy with the use of commodity micro-CT imaging. We stain whole rat and zebra finch brains in osmium tetroxide, embed these in resin and scan entire brains in a micro-CT machine. The scans result in 3D reconstructions of the brains with section thickness dependent on sample size (12–15 and 5–6 microns for rat and zebra finch respectively) that can be segmented manually or automatically. Because the method captures the entire intact brain volume, comparisons within and across studies are more tractable, and the extent of lesions and electrodes may be studied with higher accuracy than with current methods.
format	article
author	Javier Masís David Mankus Steffen B. E. Wolff Grigori Guitchounts Maximilian Joesch David D. Cox
author_facet	Javier Masís David Mankus Steffen B. E. Wolff Grigori Guitchounts Maximilian Joesch David D. Cox
author_sort	Javier Masís
title	A micro-CT-based method for quantitative brain lesion characterization and electrode localization
title_short	A micro-CT-based method for quantitative brain lesion characterization and electrode localization
title_full	A micro-CT-based method for quantitative brain lesion characterization and electrode localization
title_fullStr	A micro-CT-based method for quantitative brain lesion characterization and electrode localization
title_full_unstemmed	A micro-CT-based method for quantitative brain lesion characterization and electrode localization
title_sort	micro-ct-based method for quantitative brain lesion characterization and electrode localization
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/7beaf43883cb4e8e922e8fd11203a2f5
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A micro-CT-based method for quantitative brain lesion characterization and electrode localization

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