GEO DataSets

(Submitter supplied) Time series of human arthritic synoviocytes treated with TNFalpha. Keywords: time-course

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS386

Platform:

GPL8300

3 Samples

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Temporal analysis of arthritic synovial biopsies treated with TNF alpha at 0, 4 and 24 hours.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 time sets

Platform:

GPL8300

Series:

GSE516

3 Samples

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(Submitter supplied) Decoy receptor 3 (DcR3), a member of the tumor necrosis factor receptor (TNFR) superfamily, competitively binds and inhibits members of the TNF family, including Fas ligand (FasL), LIGHT, and TL1A. DcR3 was recently reported not only to act as a decoy receptor for these TNFRs but also to play a role as a ligand for the pathogenesis of RA. We hypothesized that DcR3 regulates the gene expression in RA-FLS. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

8 Samples

Download data: CEL

(Submitter supplied) Rheumatoid arthritis synovial fibroblasts (RASF) were transected with an adenovirus (Ad) expressing a dominant negative (DN) form of Ik-B stimulated 18 hours later with TNF-a. Controls were RASF transfected with Adtet then treated with TNF-a 18 hours later. RNA was extracted 3 hours after TNF-a application. The same cell line was split into 6 lots grown up and then treated with the virus independent. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS486

Platform:

GPL8300

6 Samples

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Analysis of rheumatoid arthritis synovial fibroblasts (RASF) expressing dominant negative form of inhibitor of nuclear factor kappa B (Ik-B). Ik-B blocks TNFalpha. Cells treated with TNFalpha at 18 hours. TNFalpha known to increase progression of RA.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 cell line sets

Platform:

GPL8300

Series:

GSE766

6 Samples

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(Submitter supplied) Background Rheumatoid arthritis (RA) is a chronic inflammatory disease, characterized by joint destruction and perpetuated by the synovial membrane (SM). In the inflamed SM, activated synovial fibroblasts (SFB) form the major cell type promoting development and progression of the disease by an abnormal expression/secretion of pro-inflammatory cytokines, tissue-degrading enzymes resulting in a predominant degradation of the extra-cellular matrix (ECM), and collagens causing joint fibrosis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

60 Samples

Download data: CEL, CHP

(Submitter supplied) Purpose: The goals of this study are to determine the effect of microRNA-17 overexpression on 20,803 human genes in RASFs using Ion ProtonTM System platform. Human RASFs from two RA patients were transfected with pre-miR-17 or NC-pre-miR for 48 h and total RNA was prepared using miRNeasy kit (Qiagen). Total RNA integrity was checked using an Agilent Technologies 2100 Bio analyzer (Santa Clara, CA). 10 ng of high quality RNA was used to make cDNA for amplification with the Ion AmpliSeq Transcriptome Human Gene Expression kit (ThermoFisher Scientific). The cDNA was subjected to 12 cycles of amplification with panel primers and barcoded with adapters as recommended. Resulting sequencing libraries were quantified by qPCR using SYBR FAST master mix from KapaBiosystems (Wilmington, MA). Sets of eight libraries were balanced, pooled and sequencing beads produced on an Ion Chef. Sequencing was performed on an Ion P1 semi-conductor sequencing chip using an Ion Proton™ System (ThermoFisher Scientific, Grand Island, NY). Data was collected and primary analysis performed using Torrent Suite software version 5.0.3. Reads were mapped to the panel and expression values determined. R Software version R-3.2.3 was used to generate heatmap. Among the panel of 20,803 genes, the expression of 15,067 genes as shown in the representative heat map was observed in pre-miR-17 and NC-pre-miR transfected RASFs. A total of 664 significantly modulated genes (301 upregulated and 363 downregulated) using Student ‘t’ test were further utilized for the IPA analysis. The result of IPA predicted the protein ubiquitin pathway as a major canonical pathway affected by the differentially regulated genes. Interestingly, IPA analysis generated an interactome that showed connectivity among various ubiquitin ligases, NF-ԟB family, AP-1/cJun, 20S and 26S proteasome system. Conclusion: Our results clearly shows the major pathways affected by miR-17 overexpression in RASFs were Protein ubiquitination related.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17303

4 Samples

Download data: TXT

(Submitter supplied) mRNA expression levels in synovial fibroblasts in 6 rheumatoid arthritis patients versus 6 osteoarthritis patients. Keywords: disease type comparison, mRNA expression study

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2931

Platform:

GPL8300

12 Samples

Download data: CEL, CHP

Comparison of synovial fibroblasts from patients with rheumatoid arthritis (RA) to those with osteoarthritis (OA). RA is characterized by chronic inflammation and destruction of multiple joints. OA is a degenerative disease resulting from the breakdown of cartilage.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 other sets

Platform:

GPL8300

Series:

GSE7669

12 Samples

Download data: CEL, CHP