Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Functional genomics atlas of synovial fibroblasts defining rheumatoid arthritis heritability

ABSTRACT: Functional genomics atlas of synovial fibroblasts defining rheumatoid arthritis heritability

PROVIDER: PRJNA686662 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13276200_1.fastq.gz	Fastqsanger.gz
	SRR13276200_2.fastq.gz	Fastqsanger.gz
	SRR13276201_1.fastq.gz	Fastqsanger.gz
	SRR13276201_2.fastq.gz	Fastqsanger.gz
	SRR13276202_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 236

Similar Datasets

Functional genomics atlas of synovial fibroblasts defining rheumatoid arthritis heritability

Project description:Genome-wide association studies have reported more than 100 risk loci for rheumatoid arthritis, and there loci have been shown to be enriched in immune cell-specific enhancers, we add Synovial fibroblasts (FLS), the local stromal cells of joints to this analysis. We integrated ChIP-seq, Hi-C, Capture Hi-C, ATAC-seq and RNA-seq datasets from FLS , with genetic fine-mapping of RA loci. From this we identified putative casual variants, enhancers and genes for 30-60% of RA loci and demonstrated that FLS regulatory elements accounts for up to 24% of RA heritability. We also examined the effects of TNF stimulation on the chromatin landscape of FLS, and we found there are significant alterations in the organization of topologically associated domains, chromatin interactions and the expression of several putative causal genes.

2020-12-20 | GSE163548 | GEO

Expression data from Rheumatoid Arthritis synovial tissue samples

Project description:Rheumatoid arthritis (RA) is a complex and clinically heterogeneous autoimmune disease. Microarray analysis of 83 synovial samples provides insight into the expression-level differences between patients at the site of disease activity. Synovial samples from Rheumatoid Arthritis patients were obtained during joint resection and profiled using microarrays.

2014-04-22 | E-GEOD-48780 | biostudies-arrayexpress

Synovial fluid proteome in rheumatoid arthritis

Project description:Rheumatoid arthritis (RA) is a chronic autoinflammatory disorder that affects small joints. Despite intense efforts, there isno definitive marker yet for early diagnosis RA and for monitoring the progression of this disease. We sought to catalog the proteins present in the synovial fluid of patients with rheumatoid arthritis. To identify lower abundance proteins, we undertook two approaches – we depleted the abundant proteins using a multiple affinity removal system (MARS14) column and we enriched glycoproteins using a lectin affinity column. The peptides were analyzed by LC-MS/MS on a high resolution Fourier transform mass spectrometer.

2016-06-13 | PXD000740 | Pride

Transcription profiling of human synovial cells isolated from patients with rheumatoid arthritis

Project description:Rheumatoid arthritis (RA), a chronic and systemic disease of unknown etiology, is characterized by hyperplasia of synovial cells, which ultimately lead to the destruction of cartilage and bone. To elucidate the molecular mechanisms that lead to RA, we analyzed synovial cells established from patient with RA by oligonucleotide microarrays. Gene expression profiles reveal a novel pathophysiologic function of RA synovial cells as a generator of oxidative stress, and a self-defense mechanism against self-generated oxidative stress. Experiment Overall Design: We isolated synovial cell culture from patients with rheumatoid arthritis and osteoarthritis. Fibroblast from patient with osteoarthritis was used for the reference.

2008-10-26 | E-GEOD-9329 | biostudies-arrayexpress

Human Rheumatoid Arthritis Synovial Fibroblasts: Control vs. Tenascin-C Stimulated

Project description:Transcriptional profiling of human rheumatoid arthritis synovial fibroblasts comparing control cells treated with BSA with cells treated with Tenascin-C.

2012-03-27 | GSE36757 | GEO

Expression data from Rheumatoid Arthritis synovial tissue samples

2014-04-22 | GSE48780 | GEO

Synovial biopsies of rheumatoid arthritis and healthy controls

Project description:Synovial biopsies were obtained from rheumatoid arthritis (RA) synovium and from subjects without a joint disease to find gene upregulated during RA. The promoters of genes upregulated during RA compared to HC can be used to obtain disease-regulated gene therapy.

2016-01-27 | GSE77298 | GEO

Synovial fluid and blood neutrophils from rheumatoid arthritis patients and matched healthy controls

Project description:Synovial fluid and blood neutrophils from 7 rheumatoid arthritis patients and 5 matched healthy controls

2018-07-11 | GSE116899 | GEO

RNA-seq of synovial biopsies from rheumatoid arthritis patients

Project description:Synovial biopsies from rheumatoid arthritis patients were obtained and profiled using RNA-seq. Patients were stratified according to the number of swollen joints they had (SJC, swollen joint count) and divided in three groups for the differential expression analysis: None (SJC = 0), Low (1<= SJC <= 8), High (SJC > 8).

2021-04-26 | E-MTAB-6684 | biostudies-arrayexpress

RNA-seq analysis of freshly isolated synovial fibroblast subsets from patients with rheumatoid arthritis

Project description:Transcriptomics of distinct subpopulations of synovial fibroblasts from osteoarthritis and rheumatoid arthritis arthroplasty tissues.

2018-01-19 | GSE109448 | 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