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Series GSE108356 Query DataSets for GSE108356
Status Public on Jul 13, 2018
Title Epigenetic regulation of brain region-specific microglia clearance activity
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary The rapid elimination of dying neurons and non-functional synapses in the brain is carried out by microglia, the resident myeloid cells of the brain. Here we show that microglia clearance activity in the adult brain is regionally regulated and depends on the rate of neuronal attrition. Cerebellar, but not striatal or cortical, microglia exhibited high levels of basal clearance activity, which correlated with an elevated degree of cerebellar neuronal attrition. Exposing forebrain microglia to apoptotic cells activated gene expression programs supporting clearance activity. We provide evidence that the Polycomb repressive complex 2 (PRC2) epigenetically restricts the expression of genes that support clearance activity in striatal and cortical microglia. Loss of PRC2 led to the aberrant activation of a microglia clearance phenotype, which triggers changes in neuronal morphology and behavior. Our data highlight a key role of epigenetic mechanisms in preventing microglia-induced neuronal alterations that are frequently associated with neurodegenerative and psychiatric diseases. 
Overall design Microglial RNAs or nuclei were isolated based on the eGFP-L10a expression of ribosomes and fluorescence of newly formed ribosomes in the microglia nucleoli, respectively
Contributor(s) Ayata P, Badimon A, Strasburger HJ, Duff M, Montgomery SE, Loh YE, Ebert A, Pimenova AA, Ramirez BR, Chan AT, Sullivan JM, Purushothaman I, Scarpa JR, Goate AM, Busslinger M, Shen L, Losic B, Schaefer A
Citation(s) 30038282
Submission date Dec 20, 2017
Last update date Mar 25, 2019
Contact name Pinar Ayata
Organization name Icahn School of Medicine at Mt Sinai
Department Neuroscience
Lab Schaefer
Street address 1425 Madison Ave
City New York
State/province New York
ZIP/Postal code 10029
Country USA
Platforms (3)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (97)
GSM2895878 cbMg H3K27me3 ChIP
GSM2895879 cbMg ChIP input
GSM2895880 stMg H3K27me3 ChIP
BioProject PRJNA423257
SRA SRP127259

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

Supplementary file Size Download File type/resource
GSE108356_H3K27me3_cbMg_stMg_counts_TSS_1kb.xlsx 715.5 Kb (ftp)(http) XLSX
GSE108356_H3K27me3_cxMg_TSS_1kb.xlsx 931.9 Kb (ftp)(http) XLSX
GSE108356_TRAP_rpkms.txt.gz 5.6 Mb (ftp)(http) TXT
GSE108356_supplementary_table_6_-_single_nuclei_gene_expression.xlsx 3.0 Mb (ftp)(http) XLSX
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Raw data are available in SRA
Processed data are available on Series record

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