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Series GSE90975 Query DataSets for GSE90975
Status Public on Aug 25, 2018
Title Unique microglia recovery population revealed by single-cell RNAseq following neurodegeneration
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Microglia are brain immune cells that constantly survey their environment to maintain homeostasis. Enhanced microglial reactivity and proliferation are typical hallmarks of neurodegenerative diseases. Whether specific disease-linked microglial subsets exist during the entire course of neurodegeneration, including the recovery phase, is currently unclear. Taking a single-cell RNA-sequencing approach in a susceptibility gene-free model of nerve injury, we identified a microglial subpopulation that upon acute neurodegeneration shares a conserved gene regulatory profile compared to previously reported chronic and destructive neurodegeneration transgenic mouse models. Our data also revealed rapid shifts in gene regulation that defined microglial subsets at peak and resolution of neurodegeneration. Finally, our discovery of a unique transient microglial subpopulation at the onset of recovery may provide novel targets for modulating microglia-mediated restoration of brain health.
 
Overall design scRNA-Seq was performed on microglial cells isolated from the ipsilateral and contralateral ventral pons of CX3CR1GFP/wt mice that underwent unilateral facial nerve axotomy at 12 weeks of age. The contralateral ventral pons of un-operated 12-week-old CX3CR1GFP/wt was used as baseline control (Day 0 post nerve transection) for the analysis. Three replicates were used per time point (Day 0, 7 and 30 post axotomy). mCEL-Seq2 protocol was used for single cell sequencing (Hashimshony et al. 2016, Herman et al. 2018).
 
Contributor(s) Tay TL, Sagar -, Grün D, Prinz M
Citation(s) 30185219
Submission date Dec 07, 2016
Last update date May 15, 2019
Contact name Sagar -
E-mail(s) sagar@ie-freiburg.mpg.de
Organization name Max Planck Institute Freiburg
Lab Dominic Grün
Street address Stübeweg 51
City Freiburg
ZIP/Postal code 79108
Country Germany
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (16)
GSM2418589 P1_1: Day 0 Control 1
GSM2418590 P1_2: Day 7 Control 1
GSM2418591 P1_3: Day 7 Lesion 1
Relations
BioProject PRJNA356541
SRA SRP094693

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
GSE90975_RAW.tar 4.3 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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