Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA seq experiment of Treg cells isolated from peripheral blood of patients with pulmonary sarcoidosis compared to Treg cells from peripheral blood of healthy individuals

ABSTRACT: Sarcoidosis is manifested by an exaggerated Th1 response on one hand, combined with high numbers of dysfunctional Treg cells on the other3. Moreover, it has been shown that Treg cells in patients with pulmonary sarcoidosis (PS) have impaired immunosuppressive function, survival and enhanced apoptotic susceptibility towards Fas ligand (CD95L)4. However, the molecular background for the impairment of the Treg function in PS has not been elucidated.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Homo sapiens

SUBMITTER: Neli Kachamakova-Trojanowska

PROVIDER: E-MTAB-6158 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

miRNA profiling of sarcoidosis Treg cells

Project description:Sarcoidosis is characterized by exaggerated immune response to unknown agent and can affect different organs. One of the main players in the pathology of the disease are regulatory T cells (Tregs), however up to date there are no insides on the possible molecular alterations of this particular cell subset. Therefore, in the current study we looked for the global changes on miRNA and mRNA level of Tregs of patients with the most predominant form of the disease - pulmonary sarcoidosis (PS). For this purpose we sorted Treg cells from peripheral blood (PB) and bronchoalveolar lavage (BAL) and analyzed the global molecular changes. MiRNA analysis showed major changes in Tregs isolated from PB to the ones from BAL, pointing at the stronger impact of the microenvironment than the disease state. Additionally, several disease-related miRNAs of PB Tregs were identified like miR-155 and miR-223.

2018-09-29 | E-MTAB-6590 | biostudies-arrayexpress

Human whole blood microarray study to compare patients with tuberculosis, sarcoidosis, pneumonia, and lung cancer (test)

Project description:This study used whole blood transcriptional signatures from patients with tuberculosis compared to those with similar pulmonary diseases, sarcoidosis, pneumonia and primary lung cancer. TB and sarcoidosis had similar signatures that were distinct from pneumonia and lung cancer. There were 11 TB, 25 sarcoidosis, 6 pneumonia, 8 lung cancer and 52 healthy controls

2013-10-31 | E-GEOD-42826 | biostudies-arrayexpress

Human whole blood microarray study to compare patients with tuberculosis, sarcoidosis, pneumonia, and lung cancer (validation)

Project description:This study used whole blood transcriptional signatures from patients with tuberculosis, sarcoidosis and healthy controls. There were 8 TB, 11 sarcoidosis and 23 healthy controls

2013-10-31 | E-GEOD-42825 | biostudies-arrayexpress

Expression data of CD4+T cells from Idiopathic CD4+ T cells lymphopenia (ICL) patients, Sarcoidosis (SARC) and Healthy individuals

Project description:This work focuses on understanding the molecular basis of the immune dysfunctions in Idiopathic CD4+ T cells lymphocytopenia (ICL). ICL is a rare haematological disorder of unknown origin, characterized by a profound and persistent CD4+ T-cell defect, which predisposes to life threatening opportunistic infections very similar to those seen in AIDS. To analyse more in depth the functional pathways involved in ICL pathogenesis, we conducted gene expression profiling of CD4+ T-cells isolated from blood samples from ICL, sarcoidosis and healthy individuals. Our analyses have revealed specific CD4+ T-cells gene expression signatures in ICL associated with defective TCR activation threshold, expansion of the Treg-cell compartment and interestingly with accelerated immune aging. 25 Total samples were analyzed. We generated the following pairwise comparisons using GenoSplice technology. We permormed multiple anlayses including : ICL vs Healthy (All or paired samples), ICL vs SARC (All or paired samples) and SARC vs Healthy (All or paired sample). Paired samples means that a same healthy individual was using in comparaison of a ICL or SARC subjects. Genes with a Fold-change ? 1,5 and P-Value ? 0,05 were selected.

2015-05-15 | E-GEOD-56998 | biostudies-arrayexpress

Transcriptome analysis of peripheral blood mononuclear cells in pulmonary sarcoidosis

Project description:Purpose: This study aimed to explore the pathobiological markers of sarcoidosis in PBMCs by comparing the transcriptional signature of PBMCs from patients with pulmonary sarcoidosis and those of healthy controls by RNA sequencing. Methods:PBMC samples were collected from subjects with pulmonary sarcoidosis with no steroid/immunosuppressant drugs (n = 8) and healthy controls (n = 11) from August 2020 to April 2021, and RNA sequencing was performed with the PBMC samples. Results: Variety of DEGs were determined between groups leading to the enrichment analysis. Conclusions: The present study demonstrated that bulk gene expression patterns in PBMCs were different between patients with pulmonary sarcoidosis and healthy controls. The changes in the gene expression pattern of PBMCs could reflect the existence of sarcoidosis lesions and influence granuloma formation in sarcoidosis.

2021-12-31 | GSE192829 | GEO

Peripheral blood gene expression as a novel genomic biomarker in complicated sarcoidosis

2012-07-01 | GSE37912 | GEO

Peripheral blood gene expression as a novel genomic biomarker in complicated sarcoidosis

Project description:Sarcoidosis, a systemic granulomatous syndrome invariably affecting the lung, typically spontaneously remits but in ~20% of cases progresses with severe lung dysfunction or cardiac and neurologic involvement (complicated sarcoidosis). Unfortunately, current biomarkers fail to distinguish patients with remitting (uncomplicated) sarcoidosis from other fibrotic lung disorders, and fail to identify individuals at risk for complicated sarcoidosis. We utilized genome-wide peripheral blood gene expression analysis to identify a gene signature distinguishing sarcoidosis from healthy controls, which also served as a molecular signature for complicated sarcoidosis. Total RNA was isolated from PBMCs using standard molecular biology protocols without DNA contamination or RNA degradation. Sample processing (e.g., cDNA generation, fragmentation, end labeling, hybridization to Affymetrix GeneChip Human Exon 1.0 ST arrays) was performed per manufacturer’s instructions. A total of 29 African descent American (AA) and 10 European descent American (EA) patients with sarcoidosis were included in the overall sarcoidosis cohort with 18 AA and 4 EA patients diagnosed with complicated sarcoidosis.

2012-06-30 | E-GEOD-37912 | biostudies-arrayexpress

RNA seq experiment of Treg cells isolated from peripheral blood of patients with pulmonary sarcoidosis compared to Treg cells from peripheral blood of healthy individuals

Project description:RNA seq experiment of Treg cells isolated from peripheral blood of patients with pulmonary sarcoidosis compared to Treg cells from peripheral blood of healthy individuals

| PRJEB23173 | ENA

Distinct miRNA gene expression profiles among the nodule tissues of lung sarcoidosis, tuberculous lymphadenitis and normal healthy control individuals

Project description:Sarcoidosis and tuberculosis share similarities in clinical manifestations and histopathological features. We aimed to identify the microRNA (miRNA) profiles of the lymph nodes of individuals with sarcoidosis and of those with tuberculous lymphadenitis to investigate the value of miRNAs in the differential diagnosis of sarcoidosis and tuberculous lymphadenitis. The miRNA profiles of the lymph nodes of individuals with sarcoidosis, those with tuberculous lymphadenitis (TBLN) and controls were detected by miRNA microarray analysis in the age- and sex-matched development group of the controls (n=3), patients with TBLN (n=3) and patients with sarcoidosis (n=3), and the results were validated by quantitative real-time polymerase chain reaction in the validation group of the controls (n=30), TBLN (n=30) and patients with sarcoidosis (n=31). The relationship between miRNA expression and the clinical parameters of sarcoidosis was analyzed.

2020-08-28 | E-MTAB-9518 | biostudies-arrayexpress

Characterization of the immunologic impact of sarcoidosis in peripheral blood mononuclear cells via single-cell RNA-seq

Project description:Sarcoidosis is a systemic inflammatory disease characterized by infiltration of immune cells into granulomas. Previous gene expression studies using heterogeneous cell mixtures lack insight into cell-type-specific immune dysregulation. We performed the first single-cell RNA-sequencing study of sarcoidosis in peripheral immune cells in 48 patients and controls. Following unbiased clustering, differentially expressed genes were identified for 18 cell types and bioinformatically assessed for function and pathway enrichment. Our results reveal persistent activation of circulating classical monocytes with subsequent upregulation of trafficking molecules. Specifically, classical monocytes upregulated distinct markers of activation including adhesion molecules, pattern recognition receptors, and chemokine receptors, as well as enrichment of immunoregulatory pathways HMGB1, mTOR, and ephrin receptor signaling. Predictive modeling implicated TGFβ and mTOR signaling as drivers of persistent monocyte activation. Additionally, sarcoidosis T cell subsets displayed patterns of dysregulation. CD4 naïve T cells were enriched for markers of apoptosis and Th17/Treg differentiation, while effector T cells showed enrichment of anergy-related pathways. Differentially expressed genes in regulatory T cells suggested dysfunctional p53, cell death, and TNFR2 signaling. Using more sensitive technology and more precise units of measure, we identify cell-type specific, novel inflammatory and regulatory pathways. Based on our findings, we suggest a novel model involving four convergent arms of dysregulation: persistent hyperactivation of innate and adaptive immunity via classical monocytes and CD4 naïve T cells, regulatory T cell dysfunction, and effector T cell anergy. We further our understanding of the immunopathology of sarcoidosis and point to novel therapeutic targets.

2020-12-01 | GSE132338 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data