NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE46373 Query DataSets for GSE46373
Status Public on Sep 09, 2014
Title Change of fate comitment in adult neural progenitor cells subjected to chronic inflammation
Organism Rattus norvegicus
Experiment type Expression profiling by array
Summary Neural progenitor cells (NPCs) have regenerative capabilities that are activated during inflammation. By measuring the global transcriptome and performing functional studies, we aimed at elucidating if and how NPCs from the non-germinal niche of the spinal cord differ from germinal niche NPCs, here represented by the subventricular zone (SVZ) NPCs. Moreover, we investigated how these cells are affected by chronic inflammation modeled by Experimental Autoimmune Encephalomyelitis (EAE). NPCs were isolated and propagated from the SVZ and cervical, thoracic and caudal regions of the spinal cord from healthy rats and rats subjected to EAE. Using Affymetrix microarray analyses, the global transcriptome was measured in the different NPC populations both in undifferentiated and differentiated cultures. These analyses were paralleled by differentiation studies and quantitative RT-PCR of differentiation-specific genes.
In NPCs isolated from healthy rats, transcriptional and functional analyses revealed a higher neurogenic potential in SVZ-derived NPCs compared to spinal cord NPCs. The neurogenicity of spinal cord NPCs was increased by exposure to the inflammatory environment. Concurrently, their gliogenicity was decreased which was supported by a decreased expression of glial differentiation signature genes and related signaling pathways. Differentiation analyses showed that spinal cord NPCs from EAE rats generated fewer oligodendrocytes and astrocytes than NPCs isolated from healthy controls.
 
Overall design 54 samples were analysed. The transcriptome of NPCs isolated from healthy rats or rats with EAE was measured. The NPCs were isolated from the SVZ and the cervical, thoracic and caudal parts of the spinal cord. Pair wise student t-test analysis between the 3 EAE replicates and naive controls for each respective tissue type was performed. Genes with a signal value above the cut-off of 50 and with FDR ≤ 5% and a foldchange of ≥1.2 or ≤-1.2 were selected for further analysis.
 
Contributor(s) Covacu R, Perez Estrada C, Arvidsson L, Svensson M, Brundin L
Citation(s) 25164655
Submission date Apr 25, 2013
Last update date Sep 09, 2014
Contact name Ruxandra Covacu
E-mail(s) ruxandra.covacu@ki.se
Phone +46736915255
Organization name Karolinska Institutet
Street address CMM, L8:04
City Stockholm
ZIP/Postal code SE-17176
Country Sweden
 
Platforms (1)
GPL6247 [RaGene-1_0-st] Affymetrix Rat Gene 1.0 ST Array [transcript (gene) version]
Samples (54)
GSM1129368 Undifferentiated NPC culture from SVZ of EAE rat, rep 1
GSM1129369 Undifferentiated NPC culture from SVZ of EAE rat, rep 2
GSM1129370 Undifferentiated NPC culture from SVZ of EAE rat, rep 3
Relations
BioProject PRJNA198867

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE46373_RAW.tar 213.6 Mb (http)(custom) TAR (of CEL)
GSE46373_plier-gene-default.summary_t-test.xlsx.gz 45.7 Mb (ftp)(http) XLSX
Processed data included within Sample table
Processed data are available on Series record
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap