Profiling of H3K27ac landscape in immune cells from rheumatoid arthritis patients and healthy controls
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PROVIDER: EGAS00001005085 | EGA |
REPOSITORIES: EGA
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Project description:We collected peripheral blood mononuclear cells (PBMC) from 6 RA patients and 4 healthy controls, as well as synovial fluid (SF) from the same RA patients. We then sorted B cells, CD4+ and CD8+ T cells, regulatory T cells and monocytes using flow cytometry and profiled regions marked with H3K27ac using CUT&Tag.
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Project description:Rheumatoid arthritis (RA) and spondyloarthropathy (SpA) are chronic inflammatory disorders primarily targeting joints. Although the type of inflammatory cells present in affected joints implicated in the disease pathogenesis is the same, the diseases differ in terms of disease activity and manifestation. So to comprehend the two diseases in better terms, we carried out a comparative gene expression profiling using the inflammatory mononuclear cells from knee aspirated synovial fluid samples as this joint fluid bathes the affected region thereby giving us a closer view of the pathological site. We identified 1469 differentially regulated genes. Out of 1469 differentially regulated genes, 1366 genes were upregulated in SpA and 103 genes were downregulated in SpA versus RA. The proposed study carried out mRNA expression profiling of mononuclear cells from synovial fluid samples of seven RA and five SpA cases. We have used 4X44K and 1X44K arrays from Agilent Technologies platform. Based on the RNA integrity, selected molecules were processed further using single-color microarray based gene expression. The raw data files obtained from this study were eventually analyzed with R package of the BioConductor suite.
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