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Series GSE144707 Query DataSets for GSE144707
Status Public on Feb 04, 2020
Title Distinct signature, origin and dynamics of macrophages in the peripheral and central nervous system (single cells)
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We performed ontogenic, transcriptomic and spatial characterization of sciatic nerve Macs (snMacs). Using multiple fate-mapping systems, we show that snMacs do not derive from the early embryonic precursors colonizing the CNS, but originate primarily from late embryonic precursors and get replaced by bone marrow-derived Macs over time. Using single-cell profiling, we identified a tissue-specific core signature of snMacs and found two spatially-separated snMacs: RelmĪ± + Mgl1 + snMacs in the epineurium and RelmĪ± Mgl1 snMacs in the endoneurium. Globally, snMacs lack most core signature genes of microglia, with only the endoneurial subset expressing a restricted number of these genes. Single-cell transcriptomics revealed that in response to injury both snMacs respond differently and that the PNS, in contrast to the CNS, is permissive to prolonged engraftment of monocyte-derived Macs recruited upon injury.
 
Overall design Microarray = Sciatic Nerve macrophages in steady state and different time points (1.5, 5, 10 and 37 days) after nerve crush. This data was compared to previously published data (GSE75225 and GSE117080) and to other tissue resident macrophages from the Immgen Consortium Database (GSE15907).
Bulk RNA Seq = Brain microglia, Optic Nerve macrophages and Sciatic Nerve macrophages. For each cell type there are 4 replicates, expect for the Brain microglia there are 5 replicates.
Single cell RNA Seq = on steady state Sciatic Nerve macrophages and at different time points (1 day and 5 days) after nerve crush.
 
Contributor(s) Ydens E, Amann L, Asselbergh B, Scott CL, Martens L, Sichien D, Mossad O, Blank T, De Prijck S, Low D, Masuda T, Saeys Y, Timmerman V, Stumm R, Ginhoux F, Prinz M, Janssens S, Guilliams M
Citation(s) 32284604
Submission date Feb 03, 2020
Last update date May 05, 2020
Contact name Liesbet Martens
E-mail(s) liesbet.martens@irc.vib-ugent.be
Organization name VIB-University of Ghent
Department VIB Inflammation Research Center
Street address Technologiepark 927
City Zwijnaarde
ZIP/Postal code 9052
Country Belgium
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (3)
GSM4294086 Steady state Sciatic nerve marcrophages
GSM4294087 Sciatic nerve macrophages 1 day after nerve crush
GSM4294088 Sciatic nerve macrophages 5 days after nerve crush
This SubSeries is part of SuperSeries:
GSE144708 Distinct signature, origin and dynamics of macrophages in the peripheral and central nervous system
Relations
BioProject PRJNA604616
SRA SRP246947

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
GSE144707_RAW.tar 7.5 Mb (http)(custom) TAR (of TXT)
GSE144707_countTable_aggrNerveStStD1D5.txt.gz 6.8 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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