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Series GSE62420 Query DataSets for GSE62420
Status Public on Oct 01, 2015
Title The regional mouse microglial transcriptome during aging
Organism Mus musculus
Experiment type Expression profiling by array
Summary Microglia are the specialised macrophages of the central nervous system parenchyma. Diversity in macrophages is increasingly apparent in tissues outside the brain however understanding is negligible for microglia. In the present study, we present the first genome-wide analysis of microglia from discrete brain regions that reveals their multiple region-dependent transcriptional identities. Differences in bioenergetic and immunoregulatory pathways are the major sources of transcriptional heterogeneity. Region-specific differences in immunophenotype suggest cerebellar and hippocampal microglia exist in a more immune vigilant state, but distinct from the conventional M1/M2 paradigm of activation. Functional responses correlate with regional transcriptional immunophenotypes. We also show that region-dependent differences in microglial immunophenotype are superimposed upon a core profile distinguishing all microglia from systemic macrophages. We suggest microglial diversity may enable microglia to accomplish their wide-ranging homeostatic functions but could also underlie region-specific sensitivity to neuroinflammatory-mediated degeneration. During ageing key findings were made regarding the reinforcement of a specific cerebellar immunophenotype and a contrasting loss in the distinction of the phenotype of the hippocampus. The present dataset provide an extensive underpinning resource for future studies to further define how microglial diversity influences the healthy, ageing and diseased brain.
 
Overall design In this study 4, 12 and 22 month old mice were transcardially perfused with 0.9% saline. Brains were collected and dissected into 4 regions: cerebellum, cortex, hippocampus, striatum. For the extraction of microglia tissue from 8 mice was pooled for each regional replicate and the experiment was performed in quadruplicates for each region. Microglia were extracted from each region using a magnetic bead based approach. Brain regions (2 animals per region) of 4 month old animals for total RNA extraction of homogenates were snap frozen and stored at (-80C). Total RNA was immediately isolated for purified microglia and stored (-80C) until performing microarray analysis of purified microglia and regional brain homogenates (n=56).
 
Contributor(s) Grabert K, Michoel T, Karavalos MH, Clohisey S, Baillie JK, Stevens MP, Freeman TC, Summers KM, McColl BW
Citation(s) 26780511, 28303091
Submission date Oct 16, 2014
Last update date Jul 12, 2019
Contact name Barry W McColl
E-mail(s) barry.mccoll@ed.ac.uk
Organization name University of Edinburgh
Department Centre for Discovery Brain Sciences
Street address 49 Little France Crescent
City Edinburgh
ZIP/Postal code EH16 4SB
Country United Kingdom
 
Platforms (1)
GPL11180 [HT_MG-430_PM] Affymetrix HT MG-430 PM Array Plate
Samples (56)
GSM1526783 Cerebellar microglia at 4month, biological rep1
GSM1526784 Cerebellar microglia at 4month, biological rep2
GSM1526785 Cerebellar microglia at 4month, biological rep3
Relations
BioProject PRJNA264067

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
GSE62420_Normalization_4month_homogenates.txt.gz 1.3 Mb (ftp)(http) TXT
GSE62420_Normalization_4month_microglia.txt.gz 2.4 Mb (ftp)(http) TXT
GSE62420_Normalization_4month_microglia_and_homogenates.txt.gz 4.7 Mb (ftp)(http) TXT
GSE62420_Normalization_all_ages_microglia.txt.gz 11.9 Mb (ftp)(http) TXT
GSE62420_RAW.tar 128.3 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file
Processed data are available on Series record
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