SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord

Spatial analysis of spinal neurons is currently limited by a lack of tools for efficient preparation and imaging of the whole spinal cord (SC) and the absence of a 3D reference atlas. Here, we describe protocols for efficient sectioning of whole SC using SpineRacks and subsequent image registration,...

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Autores principales: Fiederling, Felix, Hammond, Luke A., Ng, David, Mason, Carol, Dodd, Jane
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8605391/
https://www.ncbi.nlm.nih.gov/pubmed/34841273
http://dx.doi.org/10.1016/j.xpro.2021.100897
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author Fiederling, Felix
Hammond, Luke A.
Ng, David
Mason, Carol
Dodd, Jane
author_facet Fiederling, Felix
Hammond, Luke A.
Ng, David
Mason, Carol
Dodd, Jane
author_sort Fiederling, Felix
collection PubMed
description Spatial analysis of spinal neurons is currently limited by a lack of tools for efficient preparation and imaging of the whole spinal cord (SC) and the absence of a 3D reference atlas. Here, we describe protocols for efficient sectioning of whole SC using SpineRacks and subsequent image registration, atlas mapping, and 3D analysis of cells and projections, using SpinalJ. Together, these tools enable high-throughput analyses of adult mouse SC and direct comparison of spatial information of neurons between animals and studies. For complete details on the use and execution of this protocol, please refer to Fiederling et al. (2021).
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spelling pubmed-86053912021-11-26 SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord Fiederling, Felix Hammond, Luke A. Ng, David Mason, Carol Dodd, Jane STAR Protoc Protocol Spatial analysis of spinal neurons is currently limited by a lack of tools for efficient preparation and imaging of the whole spinal cord (SC) and the absence of a 3D reference atlas. Here, we describe protocols for efficient sectioning of whole SC using SpineRacks and subsequent image registration, atlas mapping, and 3D analysis of cells and projections, using SpinalJ. Together, these tools enable high-throughput analyses of adult mouse SC and direct comparison of spatial information of neurons between animals and studies. For complete details on the use and execution of this protocol, please refer to Fiederling et al. (2021). Elsevier 2021-11-16 /pmc/articles/PMC8605391/ /pubmed/34841273 http://dx.doi.org/10.1016/j.xpro.2021.100897 Text en © 2021 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Fiederling, Felix
Hammond, Luke A.
Ng, David
Mason, Carol
Dodd, Jane
SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord
title SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord
title_full SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord
title_fullStr SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord
title_full_unstemmed SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord
title_short SpineRacks and SpinalJ for efficient analysis of neurons in a 3D reference atlas of the mouse spinal cord
title_sort spineracks and spinalj for efficient analysis of neurons in a 3d reference atlas of the mouse spinal cord
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8605391/
https://www.ncbi.nlm.nih.gov/pubmed/34841273
http://dx.doi.org/10.1016/j.xpro.2021.100897
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