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Series GSE76097 Query DataSets for GSE76097
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
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
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).
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
Phone 4244424783
Organization name University of California Los Angeles
Department Department of Neurology and Department of Psychiatry
Lab Informatics Center for Neurogenetics and Neurogenomics (ICNN).
Street address 760 Westwood Plaza, Room 37-420
City Los Angeles
State/province CA
ZIP/Postal code 90095-1759
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (22)
GSM1974201 42 HA
GSM1974202 42 FLOW
GSM1974203 79 HA
BioProject PRJNA306222
SRA SRP067494

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Supplementary file Size Download File type/resource
GSE76097_Complete_geneList_IP_only.csv.gz 3.9 Mb (ftp)(http) CSV
GSE76097_Complete_geneList_STAT3_HA_IP_vs_STAT3_HA_SCI_flow.csv.gz 2.6 Mb (ftp)(http) CSV
GSE76097_Complete_geneList_WT_SCI_HA_IP_vs_WT_SCI_flow.csv.gz 2.8 Mb (ftp)(http) CSV
GSE76097_Complete_geneList_WT_Uninjured_HA_IP_vs_WT_Uninjured_flow.csv.gz 3.5 Mb (ftp)(http) CSV
GSE76097_Complete_geneList_flow_only.csv.gz 4.8 Mb (ftp)(http) CSV
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Processed data are available on Series record

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