GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE117149 Query DataSets for GSE117149
Status Public on Oct 27, 2019
Title Identification of a novel arthritis-associated osteoclast precursor macrophage regulated by FoxM1.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Macrophages comprise a variety of subsets with diverse biological activity, contributing to tissue homeostasis and a broad spectrum of pathogenesis. In response to environmental cues, they follow distinct developmental pathways such as differentiation into osteoclasts. In rheumatoid arthritis (RA), deep infiltration of the inflamed synovium eventually leads to irreversible destruction of the joints caused by pathological osteoclasts formed on periosteal surface. Although bone marrow macrophages have been extensively examined in the field, the precise entity of osteoclast precursors (OP) in pannus has yet to be identified, so as the trajectory of them. Here we show that OPs in pannus are exclusively derived from bone marrow through circulation, not from locally resident origins, and identify CX3CR1hiLy6CintF4/80+I-A/I-E+ macrophages, which we term ‘arthritis-associated osteoclastogenic macrophages (AtoM)’, as a population of OPs in inflamed synovium, comprising a distinct subset from conventional OPs in bone marrow represented by CX3CR1+Ly6ChiF4/80+I-A/I-E- fraction. Transcriptional profiling showed that AtoM differentially expresses genes related to osteoclastogenesis and mitochondrial biosynthesis, and is regulated by a characteristic transcription factor, FoxM1.
Overall design (i) We performed an unbiased global transcriptomic comparison of R1 cells in the blood, R2’ and R3’ cells in the inflamed synovium in triplicates by RNA-sequencing analysis.
(ii) CX3CR1hiLy6Cint subset in situ cells were sorted and targeted single-cell RNA-seq analysis was conducted (8682 single cells).
Contributor(s) Hasegawa T, Okuzaki D, Kikuta J
Citation(s) 31740799
Submission date Jul 16, 2018
Last update date Nov 20, 2019
Contact name Daisuke Okuzaki
Phone +81-6-6879-4935
Organization name Osaka univ.
Department Immunology Frontier Research Center
Lab Human Immunology (Single Cell Genomics)
Street address Yamadaoka 3-1
City Suita
State/province Osaka
ZIP/Postal code 565-0871
Country Japan
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (10)
GSM3272285 R1 subset in the blood_rep1
GSM3272286 R1 subset in the blood_rep2
GSM3272287 R1 subset in the blood_rep3
BioProject PRJNA481309
SRA SRP153896

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
GSE117149_GMX_BD-Rhapsody-genomics-informatics_UG_EN.pdf 4.5 Mb (ftp)(http) PDF
GSE117149_RAW.tar 2.7 Mb (http)(custom) TAR (of CSV, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap