Table 1

Microarray data mining

Analysis

Finding

RA-related genes in human chondrocytes differentially expressed in human chondrocytes that were stimulated with supernatant of RASFs versus NDSF stimulation

- 110 pharmacological marker genes and relevant pathways of RA-related chondrocyte dysfunction

KEGG pathway analysis

Antirheumatic drug response signatures in human chondrocytes

- Mechanism of drug action

Differential expression of RA-related genes in human chondrocytes due to antirheumatic treatment of RASFs (stimulation of human chondroctyes with supernatant of drug-treated RASFs versus stimulation with supernatant of untreated RASFs)

- 94 pharmacological marker genes and relevant pathways for stimulation of cartilage regeneration and suppression of inflammation

Hierarchical clustering analysis, principal components analysis, and KEGG pathway analysis

Validation of microarray data

- Microarray data were confirmed for selected genes/proteins

- Real-time reverse transcription-polymerase chain reaction

- Enzyme-linked immunosorbent assay

KEGG, Kyoto Encyclopaedia of Genes and Genomes; NDSF, healthy donor synovial fibroblast; RA, rheumatoid arthritis; RASF, rheumatoid arthritis synovial fibroblast.

Andreas et al. Arthritis Research & Therapy 2009 11:R15   doi:10.1186/ar2605