GEO DataSets

Analysis of cultured skin fibroblasts overexpressing TGF-ß for 24 and 48 hrs. Results compared to fibroblasts overexpressing Egr-1 (GDS5191). Egr-1 is a zinc finger transcription factor whose expression is induced by TGF-ß. Results examine overlapping Egr-1- and TGF-ß-regulated gene signatures.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 protocol, 2 time sets

Platform:

GPL6104

Series:

GSE27165

8 Samples

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(Submitter supplied) Systemic sclerosis (SSc) is characterized by vascular damage, autoimmunity and fibrosis and is associated with highly variable clinical presentation and disease course. Aberrant transforming growth factor-ß (TGF-ß) signaling via the early immediate transcription factor Egr-1 is implicated in the pathogenesis of SSc. To shed light on the role of Egr-1 in fibrosis, regulation of gene expression in human skin fibroblasts overexpressing Egr-1 was examined by genome-wide expression analysis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS5191 GDS5192

Platform:

GPL6104

12 Samples

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Analysis of cultured skin fibroblasts overexpressing Egr-1 for 24 and 48 hs. Egr-1 is a zinc finger transcription factor whose expression is induced by TGF-ß. Results provide insight into gene targets of Egr-1 and are compared to results of fibroblasts overexpressing TGF-ß (GDS5192).

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 protocol, 2 time sets

Platform:

GPL6104

Series:

GSE27165

8 Samples

Download data

(Submitter supplied) Systemic sclerosis (SSc) is a rare but devastating disease of fibrosis impacting the dermis and multiple organ systems. The prevalence ranges from 4 to 489 cases per million individuals with ten year mortality rates reported around 18 percent. Survival is related to the extent of skin involvement, yet the precise mechanisms driving skin fibrosis in SSc remain unknown. In this study, we analyzed the shared and unique transcriptomic profiles of SSc and normal keratinocytes.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17692

20 Samples

Download data: CEL, TXT

(Submitter supplied) In this study, we analyzed the gene expression profiles of the lung in mouse bleomycin (BLM)-induced systemic sclerosis (SSc) model treated with MT-7117. Gene array analysis using the BLM-induced SSc model demonstrated changes in numerous categories related to macrophages, monocytes, and neutrophils, followed by endothelial cell-related categories after treatment with MT-7117 (Dersimelagon). In the analysis that focused on biological functions, categories of inflammatory response, activation of antigen-presenting cells, angiogenesis, atherosclerosis, vasculogenesis, and vaso-occlusion were suppressed by MT-7117. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL21163

30 Samples

Download data: TXT

(Submitter supplied) Gene expression in mice skin stimulated with 3 different cytokines We used microarrays to detail the global programme of specific or common gene expression by 3 cytokines: TGF-beta, IL-13 and TSLP

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL8321

6 Samples

Download data: CEL

(Submitter supplied) Primary dermal fibroblasts from patients with dSSc and healthy controls were treated with TGF beta for up to 24h and the genome-wide patterns of gene expression measured on DNA microarrays. 894 genes were identified as TGF beta-responsive in 4 independent cultures of dermal fibroblasts (2 healthy control and 2 dSSc patients). The 894 genes in the TGF beta-responsive signature are associated with induction of growth factor signaling, collagen synthesis and extracellular matrix deposition.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL6848 GPL6480

40 Samples

Download data: GPR

(Submitter supplied) Epigenetic activation of an enhancer for TGFB2 locks SSc patient fibroblasts into a pro-fibrotic synthetic state through mechanisms dependent on NF-kB and BRD4.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

24 Samples

Download data: BW, TXT

(Submitter supplied) Pulmonary fibrosis develops as a consequence of environmentally induced lung injury and/or an inherent disease susceptibility causing fibroblast activation, proliferation and extracellular matrix deposition. The study was undertaken to characterise global gene expression in pulmonary fibroblasts to better understand the mechanisms underlying the fibrotic fibroblast phenotype.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4995

Platform:

GPL96

21 Samples

Download data: CEL

Analysis of lung fibroblasts isolated from biopsies, taken at the time of diagnosis, from patients with well-defined pulmonary fibrosis associated with systemic sclerosis (SSc-ILD). Results provide insight into the molecular mechanisms underlying the fibrotic fibroblast phenotype in SSc-ILD.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 disease state sets

Platform:

GPL96

Series:

GSE40839

21 Samples

Download data: CEL

(Submitter supplied) Normal fibroblasts and SSc fibroblasts between the third and six subpassages were used for experiments. Total RNA was extracted from culture cells with ISOGEN (Nippon Gene, Tokyo, Japan). MicroRNA isolation from total RNA was performed using RT2 qPCR-Grade miRNA Isolation Kit (SA Bioscience). For RT2 Profiler PCR Array (SABioscience), microRNAs were reverse-transcribed into first strand cDNA using RT2 miRNA First Strand Kit (SABiosciences). more...

Organism:

Homo sapiens

Type:

Expression profiling by RT-PCR

Platform:

GPL14956

2 Samples

Download data: TXT

(Submitter supplied) We examined the effect of IL-17 signaling pathway on extracellular matrix (ECM) expression and the involvement of IL-17 signaling pathway in pathogenesis of SSc. To identify differences in the expression pattern of ECM genes in IL-17A- or IL-17F-treated cells, we performed PCR array analysis, consisting of 84 ECM-related genes. Normal human dermal fibroblasts were cultured until they were confluent, and then stimulated with IL-17A or IL-17F for 12 hours, and total RNA was extracted. more...

Organism:

Homo sapiens

Type:

Expression profiling by RT-PCR

Platform:

GPL14864

3 Samples

Download data: TXT

(Submitter supplied) Pathway expression analysis in systemic sclerosis revealed key mediators driving pathology within each of the intrinsic gene expression subsets. Genome-wide expression profiling in systemic sclerosis (SSc) has identified four 'intrinsic' subsets of disease (fibroproliferative, inflammatory, limited, and normal-like), each of which appear to be driven by distinct signaling pathways. Here we examine experimentally derived gene expression signatures for thirteen agonists to better understand the molecular mechanisms underlying each intrinsic subsets. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL14550 GPL6480

94 Samples

Download data: TXT

(Submitter supplied) In addition to autoimmune and inflammatory diseases, variants of the TNFAIP3 gene encoding A20 are also associated with systemic sclerosis (SSc). However, it remains unclear how genetic factors contribute to fibrosis in SSc, and which cell types drive disease due to SSc-specific genetic alterations. We characterized the expression and function of A20, and its negative transcriptional regulator DREAM, in patient with SSc. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

8 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array

7 related Platforms

577 Samples

Download data: CEL, GPR, TXT

(Submitter supplied) Systemic sclerosis (SSc) is an autoimmune disease characterized by clinical heterogeneity, multi-organ involvement, and complex genetic risk. Here, we report the first multi-tissue meta-analysis of ten independent SSc gene expression datasets. We identify a common immune-fibrotic expression axis across all tissues that is associated with the most severe disease phenotypes. The coexpression patterns conserved across tissues and phenotypes were used to query functional genomic networks, which allowed us to identify common and tissue-specific disease drivers. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6480

15 Samples

Download data: TXT

(Submitter supplied) Systemic sclerosis (SSc) is an autoimmune disease characterized by clinical heterogeneity, multi-organ involvement, and complex genetic risk. Here, we report the first multi-tissue meta-analysis of ten independent SSc gene expression datasets. We identify a common immune-fibrotic expression axis across all tissues that is associated with the most severe disease phenotypes. The coexpression patterns conserved across tissues and phenotypes were used to query functional genomic networks, which allowed us to identify common and tissue-specific disease drivers. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14550

24 Samples

Download data: TXT

(Submitter supplied) Progressive fibrosis of the skin and internal organs accounts for the intractable nature and the high mortality of scleroderma. As the principal effector cells responsible for fibrosis, stromal fibroblasts and myofibroblasts contribute to excessive deposition of collagens and other extracellular matrix proteins. Transforming growth factor β (TGF-β), which stimulates collagen synthesis, myofibroblast differentiation and epithelial-mesenchymal transition (EMT), is implicated as a key initiating factor in both physiological and pathological tissue remodeling. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

22 Samples

Download data: TXT

(Submitter supplied) Systemic sclerosis (SSc) is a complex multi-system autoimmune disease characterized by immune dysregulation, vasculopathy, and organ fibrosis. Skin fibrosis causes high morbidity and impaired quality of life in affected individuals. In this study, we identified the COL22α1 gene associated with the pathogenesis of skin fibrosis through high-throughput RNA sequencing of human skin in organ culture. The expression levels of COL22α1 were significantly increased by TGFβ in ex vivo human skin tissues and normal human skin fibroblasts, while other fibrosis growth factors such as IL-6 and bleomycin modestly increased COL22α1 expression.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

4 Samples

Download data: TXT

(Submitter supplied) We assessed genome-wide chromatin accessibility and transcription factor footprinting in endothelial cells and fibroblasts isolated from skin biopsies from healthy subjects and diffuse cutaneous scleroderma patients.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24676

24 Samples

Download data: NARROWPEAK