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| Status |
Public on Nov 18, 2024 |
| Title |
Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemia [spatial transcriptomics] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
We performed spatial and single-cell transcriptomics on male mouse brains to map out the molecular and cellular processes governing the response to ischemic stroke during the first week after the injury. Focusing on glial cells, we documented their activation, the formation of the glial scar, and significant changes in cell–cell communication patterns. Interestingly, we identified various activated populations of oligodendrocytes that, while similar in their anti-inflammatory properties, differ in their immunogenic and metabolic characteristics. This challenges the long-held belief that oligodendrocytes play a passive role in neuropathologies. Altogether, we present a major contribution to the current understanding of the role of glial cells in stroke pathobiology, comprehensively mapping their acute response and role in the formation of the glial scar.
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| Overall design |
To invesigate ischemic brain injury, mouse model of permanent middle cerebral artery occlusion was used. Screened timepoints include control, day 1, 3, and 7 post the injury. Coronal sections were sampled from bregma -1.3 mm and processed using the 10X Genomics Visium platform with the 55-um spot resolution.
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| Contributor(s) |
Zucha D, Abaffy P, Kirdajova D, Valihrach L, Jirak D, Kubista M, Anderova M |
| Citation(s) |
39499634 |
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| Submission date |
May 31, 2023 |
| Last update date |
Nov 19, 2024 |
| Contact name |
Lukas Valihrach |
| Organization name |
Institute of Biotechnology, Czech Academy of Science
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| Lab |
Laboratory of Gene Expression
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| Street address |
Prumyslova 595
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| City |
Vestec |
| ZIP/Postal code |
25250 |
| Country |
Czech Republic |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (5)
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| This SubSeries is part of SuperSeries: |
| GSE233815 |
Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemia |
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| Relations |
| BioProject |
PRJNA978036 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE233814_RAW.tar |
1.8 Gb |
(http)(custom) |
TAR (of JSON, MTX, TIFF, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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