Unbiased quantification of the spatial distribution of murine cells using point pattern analysis
Summary: CNS injuries are associated with profound changes in cell organization. This protocol presents a stepwise approach to quantitatively describe the spatiotemporal changes in glial cell rearrangement in the injured murine brain, which is applicable to other biological contexts. Herein, we appl...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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Elsevier
2024-06-01
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| Series: | STAR Protocols |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2666166724001540 |
| _version_ | 1797226622506500096 |
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| author | Daniel Manrique-Castano Ayman ElAli |
| author_facet | Daniel Manrique-Castano Ayman ElAli |
| author_sort | Daniel Manrique-Castano |
| collection | DOAJ |
| description | Summary: CNS injuries are associated with profound changes in cell organization. This protocol presents a stepwise approach to quantitatively describe the spatiotemporal changes in glial cell rearrangement in the injured murine brain, which is applicable to other biological contexts. Herein, we apply common immunolabeling of neurons and glial cells and wide-field microscopy imaging. Then, we employ computational tools for alignment to the Allen Brain Atlas, unbiased/automatic detection of cells, generation of point patterns, and data analysis.For complete details on the use and execution of this protocol, please refer to Manrique-Castano et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| first_indexed | 2024-04-24T14:27:50Z |
| format | Article |
| id | doaj.art-571832ac25f4464b910b7314d846d3bc |
| institution | Directory Open Access Journal |
| issn | 2666-1667 |
| language | English |
| last_indexed | 2024-04-24T14:27:50Z |
| publishDate | 2024-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj.art-571832ac25f4464b910b7314d846d3bc2024-04-03T04:27:27ZengElsevierSTAR Protocols2666-16672024-06-0152102989Unbiased quantification of the spatial distribution of murine cells using point pattern analysisDaniel Manrique-Castano0Ayman ElAli1Neuroscience Axis, Research Center of CHU de Québec - Université Laval, Quebec City, QC G1V 0A6, Canada; Department of Psychiatry and Neuroscience, Faculty of Medicine, Université Laval, Quebec City, QC G1V 4G2, Canada; Corresponding authorNeuroscience Axis, Research Center of CHU de Québec - Université Laval, Quebec City, QC G1V 0A6, Canada; Department of Psychiatry and Neuroscience, Faculty of Medicine, Université Laval, Quebec City, QC G1V 4G2, Canada; Corresponding authorSummary: CNS injuries are associated with profound changes in cell organization. This protocol presents a stepwise approach to quantitatively describe the spatiotemporal changes in glial cell rearrangement in the injured murine brain, which is applicable to other biological contexts. Herein, we apply common immunolabeling of neurons and glial cells and wide-field microscopy imaging. Then, we employ computational tools for alignment to the Allen Brain Atlas, unbiased/automatic detection of cells, generation of point patterns, and data analysis.For complete details on the use and execution of this protocol, please refer to Manrique-Castano et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.http://www.sciencedirect.com/science/article/pii/S2666166724001540Cell BiologyMicroscopyNeuroscience |
| spellingShingle | Daniel Manrique-Castano Ayman ElAli Unbiased quantification of the spatial distribution of murine cells using point pattern analysis STAR Protocols Cell Biology Microscopy Neuroscience |
| title | Unbiased quantification of the spatial distribution of murine cells using point pattern analysis |
| title_full | Unbiased quantification of the spatial distribution of murine cells using point pattern analysis |
| title_fullStr | Unbiased quantification of the spatial distribution of murine cells using point pattern analysis |
| title_full_unstemmed | Unbiased quantification of the spatial distribution of murine cells using point pattern analysis |
| title_short | Unbiased quantification of the spatial distribution of murine cells using point pattern analysis |
| title_sort | unbiased quantification of the spatial distribution of murine cells using point pattern analysis |
| topic | Cell Biology Microscopy Neuroscience |
| url | http://www.sciencedirect.com/science/article/pii/S2666166724001540 |
| work_keys_str_mv | AT danielmanriquecastano unbiasedquantificationofthespatialdistributionofmurinecellsusingpointpatternanalysis AT aymanelali unbiasedquantificationofthespatialdistributionofmurinecellsusingpointpatternanalysis |