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Table 2 Ontological classes of differentially expressed genes in long-standing rheumatoid arthritis versus controls

From: Early and long-standing rheumatoid arthritis: distinct molecular signatures identified by gene-expression profiling in synovia

  Gene regulation Long-standing rheumatoid arthritis versus controls P value
Biological processes    
  Up (cluster 2)   
   Pheromone response 0.002
   Chemosensory perception 0.002
   Pyrimidine metabolism 0.03
  Down (cluster 1)   
   Fatty acid beta oxidation 0.003
   Protein biosynthesisa 0.007
   Nucleoside, nucleotide, and nucleic acid metabolisma 0.009
   Constitutive exocytosis 0.02
   Vitamin biosynthesis 0.03
   Amino acid transport 0.04
   Fatty acid metabolism 0.04
Molecular functions    
  Up (cluster 2)   
   Serine protease 0.003
   Interleukin receptor 0.02
   Protease 0.03
   Nucleotide kinase 0.04
   Cytokine receptor 0.04
  Down (cluster 1)   
   Storage protein 0.002
   Ribosomal proteina 0.01
   Metalloprotease inhibitora 0.02
   Amino acid transporter 0.02
   Extracellular matrix linker protein 0.02
   Other receptor 0.04
Pathways    
  Up (cluster 2)   
   Salvage pyrimidine deoxyribonucleotidesa 0.003
   Vasopressin synthesis 0.005
   p38 MAPK pathway 0.03
  Down (cluster 1)   
   Vitamin D metabolism and pathway 0.02
   Histamine receptor-mediated signaling pathway 0.04
   Enkephalin release 0.04
  1. The gene-ontology terms used are those of the PANTHER (Protein ANalysis THrough Evolutionary Relationships) database. aCommon ontological classes found in both comparisons: early rheumatoid arthritis (RA) or long-standing RA versus controls (see also Table 1). MAPK, mitogen-activated protein kinase.