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| Status |
Public on Mar 30, 2016 |
| Title |
In vivo analysis of astrocyte ribosome-associated mRNA after traumatic spinal cord injury |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Analysis of gene expression by astrocytes or non-astrocyte cells in spinal cord injury (SCI) lesions may lead to the identification of molecules that impact on axon regrowth. We conducted genome-wide RNA sequencing of (i) immunoprecipitated astrocyte-specific ribosome-associated RNA (ramRNA) from WT or STAT3-CKO astrocytes, and (ii) the non-precipitated (flow-through) RNA deriving from non-astrocyte cells in the same tissue samples 14 days following SCI.
DOI: 10.1038/nature17623
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| Overall design |
Young adult female mGFAP-Cre-RiboTag or mGFAP-Cre-RiboTag-STAT3-LoxP mice underwent severe crush SCI at thoracic level 10. 14 days following SCI, the central 3mm of the SCI lesion was extracted, homogenized and (i) astrocyte-specific ribosome-associated RNA (ramRNA) precipitated via a hemagglutinin (HA) tag targeted to either WT (n=4) or STAT3-CKO (n=3) astrocytes, and (ii) the non-precipitated (flow-through) RNA deriving from non-astrocyte cells in the same tissue samples. Sex and age-matched mGFAP-Cre-RiboTag mice served as uninjured controls (n=4).
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| Contributor(s) |
Burda JE, Anderson MA, Ren Y, O'Shea TM, Kawaguchi R, Coppola G, Khakh BS, Deming TJ, Sofroniew MV |
| Citation(s) |
27027288 |
| Submission date |
Dec 17, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Riki Kawaguchi |
| E-mail(s) |
rkawaguchi@mednet.ucla.edu
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| Phone |
4244424783
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| Organization name |
University of California Los Angeles
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| Department |
Department of Neurology and Department of Psychiatry
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| Lab |
Informatics Center for Neurogenetics and Neurogenomics (ICNN).
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| Street address |
760 Westwood Plaza, Room 37-420
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-1759 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (22)
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| Relations |
| BioProject |
PRJNA306222 |
| SRA |
SRP067494 |
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