E-GEOD-30023 - A comparative gene expression profiling of spondyloarthropathy and rheumatoid arthritis using oligonucleotide based microarrays

Status
Released on 15 July 2013, last updated on 2 June 2014
Organism
Homo sapiens
Samples (12)
Arrays (2)
Protocols (6)
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.
Experiment type
transcription profiling by array 
Contacts
Akhilesh Pandey
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-30023.idf.txt
Sample and data relationshipE-GEOD-30023.sdrf.txt
Raw data (1)E-GEOD-30023.raw.1.zip
Processed data (1)E-GEOD-30023.processed.1.zip
Array designsA-AGIL-11.adf.txt, A-AGIL-28.adf.txt
Links