GEO DataSets

(Submitter supplied) Gene expression profiles in synovial biopsies from patients with rheumatoid arthritis (RA) display a high level of plasticity related to disease activity and response to therapy. In order to identify TNFa-dependent genes in ex vivo RA or other synovial biopsies, we generated the present set of data using primary fibroblast-like synovial cell (FLS) cultures incubated overnight in the presence or the absence of TNFa.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

4 Samples

Download data: CEL

(Submitter supplied) Rheumatoid arthritis (RA) is a chronic, systemic autoimmune inflammatory disease that is characterized by the presence of inflammatory cytokines, including interleukin-6 (IL-6). Here, we investigated the global molecular effects of Tocilizumab, an approved humanized anti-IL6 Receptor antibody, versus Methotrexate therapy, in synovial biopsy samples collected prospectively in early RA before and 12 weeks after administration of the drug. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS5068 GDS5069

Platform:

GPL570

40 Samples

Download data: CEL

Analysis of synovial biopsies from rheumatoid arthritis patients before and 12 weeks after the start of methotrexate (MTX) therapy. Results compared to those obtained from tocilizumab (TCZ) therapy (GDS5068) and provide insight into the differences in the mechanisms of action between TCZ and MTX.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 agent, 8 individual sets

Platform:

GPL570

Series:

GSE45867

16 Samples

Download data: CEL

Analysis of synovial biopsies from rheumatoid arthritis patients before and 12 weeks after the start of tocilizumab (TCZ) therapy. Results compared to those obtained from methotrexate (MTX) therapy (GDS5069) and provide insight into the differences in the mechanisms of action between TCZ and MTX.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 agent, 12 individual sets

Platform:

GPL570

Series:

GSE45867

24 Samples

Download data: CEL

(Submitter supplied) TNFalpha and IL1beta play a pathogenic role in rheumatoid arthritis. Both cytokines are known to activate cytokine and metalloproteinase secretion by synovial fibroblasts. In the present study, we wanted to investigate whether TNFalpha and IL1beta displayed differential effects on cultured Fibroblast-like Synovial Cells derived from RA patients. Global gene expression analyses indicated that both cytokines induced similar genes in these cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

6 Samples

Download data: CEL

(Submitter supplied) TNF antagonists are routinely used in severe rheumatoid arthritis (RA) patients who failed conventional DMARD therapy. According to large clinical trials, the three available drugs (adalimumab, infliximab and etanercept) display similar effects in terms of efficacy, tolerability and side effects. These studies also indicate that about 25% of RA patients treated with TNF-antagonists do not display any significant clinical improvement. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

11 Samples

Download data: CEL

(Submitter supplied) Synovial biopsies of Rheumatoid Arthritis patients with active disease were obtained prior to anti-TNF therapy. Clinical response to anti-TNF treatment was measured 20 weeks later using the EULAR response criteria. Gene expression profiles of patients responding to anti-TNF therapy were compared to non-responders and several genes were found to be differentially expressed between both groups of Rheumatoid Arthritis patients.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL8234

11 Samples

Download data: TXT

(Submitter supplied) Total RNA sequencing was performed on samples isolated from joint synovial biopsies from subjects with rheumatoid arthritis before and after 6 months of triple DMARD treatment

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

38 Samples

Download data: TXT

(Submitter supplied) Total RNA sequencing was performed on samples isolated from joint synovial biopsies from subjects with and without rheumatoid arthritis

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

218 Samples

Download data: TXT

(Submitter supplied) Background: Although the use of TNF inhibitors has fundamentally changed the way rheumatoid arthritis (RA) is treated, not all patients respond well. It is desirable to facilitate the identification of responding and non-responding patients prior to treatment, not only to avoid unnecessary treatment but also for financial reasons. In this work we have investigated the transcriptional profile of synovial tissue sampled from RA patients before anti-TNF treatment with the aim to identify biomarkers predictive of response. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL7768

62 Samples

Download data: GPR

(Submitter supplied) Our goal was to assess for the histological and transcriptomic effects of Abatacept on RA synovia, and to compare them with previously published data from four other DMARDs: Tocilizumab, Rituximab, Methotrexate and Adalimumab.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

20 Samples

Download data: CEL

(Submitter supplied) We explored transcriptomic profiles of paired synovial biopsies from RA patients, in order to assess heterogeneity in synovial tissue at the individual level. Pairwise comparison of transcriptomic profiles showed similar expression of RA-related molecular pathways (TCR signaling, T cell co-stimulation and response to TNF⍺), thereby showing that global molecular alterations in RA synovitis are similar between small and large joints from the same patient.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

24 Samples

Download data: CEL

(Submitter supplied) Rheumatoid arthritis (RA) is an inflammatory joint disorder that results in progressive joint damage when insufficiently treated. In order to prevent joint destruction and functional disability in RA, early diagnosis and initiation of appropriate treatment with Disease-Modifying Antirheumatic Drugs (DMARDs) is needed. However, in daily clinical practice, patients may initially display symptoms of arthritis that do not fulfil the classification criteria for a definite diagnosis of RA, or any other joint disease, a situation called “Undifferentiated Arthritis” (UA). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4195

Platform:

GPL570

25 Samples

Download data: CEL, CHP

Analysis of synovial biopsies obtained by needle arthroscopy from affected knees of patients with systemic lupus erythematosus (SLE), rheumatoid arthritis (RA), or osteoarthritis (OA). Results provide insight into distinct molecular mechanisms underlying SLE arthritis relative to those of OA and RA.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 5 disease state, 2 gender sets

Platform:

GPL570

Series:

GSE36700

25 Samples

Download data: CEL, CHP

(Submitter supplied) Objectives: This study was undertaken to understand the mechanistic basis of response to anti-TNF therapies and determine if transcriptomic changes in the synovium are reflected in peripheral protein markers. Methods: Synovial tissue from 46 RA patients was profiled with RNA sequencing before and 12 weeks after treatment with anti-TNF therapies. Pathway and gene signature analyses were performed on RNA expression profiles of synovial biopsies to identify mechanisms that could discriminate among EULAR good, moderate and non-responders. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21290

92 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to investigate the transcriptomic heterogeneity in synovial tissue of early untreated rheumatoid arthritis patients in association with clinical data

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

74 Samples

Download data: TXT

(Submitter supplied) In rheumatoid arthritis (RA), the activation of T and B cell clones specific for self-antigens leads to the chronic inflammation of the synovium. Here, we perform an in-depth quantitative analysis of the seven chains that comprise the adaptive immune receptor repertoire (AIRR) in RA. In comparison to controls, we show that RA patients have multiple and strong differences in the BCR repertoire including reduced diversity as well as altered isotype, chain and segment frequencies. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL24676

112 Samples

Download data: TSV, TXT