Skip to main content

Table 3 Genes representative of gene clusters associated with osteoarthritis

From: Genome-wide expression profiles of subchondral bone in osteoarthritis

Functional annotation (number of genes, P value)a Representative genes   Fold-change (MT vs. LT)
  Accession number Gene symbol Gene name P valueb OA (microarray) Non-OA (microarray) OA (qRT-PCR)
Abnormal morphology of bone NM_004370 COL12A1 Collagen, type XII, alpha 1 6.55 × 10–08 2.26 1.01 1.76
  (42 genes, P = 1.5 × 10–6) NM_000594 TNF Tumor necrosis factor 1.17 × 10–08 −3.17 −1.45 −3.42*
Abnormal morphology of collagen fibrils NM_000093 COL5A1 Collagen, type V, alpha 1 2.63 × 10–08 2.90 1.35 6.40*
  (7 genes, P = 1.68 × 10–6) NM_000393 COL5A2 Collagen, type V, alpha 2 2.34 × 10–10 3.12 1.40 3.18
Adiposity (24 genes, P <10–7) NM_003394 WNT10B Wingless-type MMTV integration site Family, member 10B 9.76 × 10–09 2.05 −1.08 NA
  NM_001279 CIDEA Cell death-inducing DFFA-like effector a 2.74 × 10–09 −6.26 −1.71 NA
Bone mineral density NM_025237 SOST Sclerostin 2.59 × 10–04 2.51 1.44 4.77*
  (21 genes, P = 1.1 × 10–5) NM_005357 LIPE Lipase, hormone-sensitive 4.46 × 10–09 −8.71 −1.73 −4.21*
Angiogenesis NM_004673 ANGPTL1 Angiopoietin-like 1 2.55 × 10–06 2.16 1.02 NA
  (69 genes, P <10–7) NM_002982 CCL2 Chemokine (C–C motif) ligand 2 3.08 × 10–05 −3.76 −1.31 −4.87*
Osteoarthritis NM_001851 COL9A1 Collagen, type IX, alpha 1 1.42 × 10–06 2.19 −1.05 2.35
  (23 genes, P <10–7) NM_001463 FRZB Frizzled-related protein 1.36 × 10–10 −3.69 1.38 −7.72*
Proliferation of cells NM_001004439 ITGA11 integrin, alpha 11 4.05 × 10–10 2.31 −1.03 NA
  (303 genes, P <10–7) NM_021077 NMB Neuromedin B 1.14 × 10–06 −3.00 −1.36 NA
  NM_004490 GRB14 Growth factor receptor-bound protein 14 3.38 × 10–12 −3.20 −1.18 NA
  NM_006763 BTG2 BTG family, member 2 9.11 × 10–08 −3.67 −1.31 NA
Quantity of connective tissue NM_003474 ADAM12 ADAM metallopeptidase domain 12 1.86 × 10–10 2.30 1.10 1.93
  (48 genes, P <10–7) NM_022094 CIDEC Cell death-inducing DFFA-like effector c 2.08 × 10–07 −6.09 −1.63 NA
Differentiation of cells NM_054034 FN1 Fibronectin 1 1.44 × 10–07 2.19 1.38 2.10*
  (175 genes, P <10–7) NM_016619 PLAC8 Placenta-specific 8 1.01 × 10–08 −2.28 1.14 NA
Cell movement NM_000094 COL7A1 Collagen, type VII, alpha 1 2.25 × 10–09 2.28 −1.00 3.81*
  (176 genes, P <10–7) NM_012193 FZD4 Frizzled family receptor 4 3.62 × 10–10 −3.02 −1.37 4.93*
Necrosis NM_080838 WISP1 WNT1 inducible signaling pathway protein 1 3.79 × 10–08 2.50 1.09 NA
  (218 genes, P <10–7) NM_004797 ADIPOQ Adiponectin, C1Q and collagen domain containing 1.71 × 10–07 −6.63 −1.69 10.51*
Mineralization of cells NM_001719 BMP7 Bone morphogenetic protein 7 1.65 × 10–09 2.50 1.34 2.26**
  (14 genes, P = 3 × 10–6) NM_015424 CHRDL2 Chordin-like 2 1.40 × 10–04 −4.04 1.38 −15.71*
  1. LT, lateral tibial; MT, medial tibial; NA, not analyzed; OA, osteoarthritis. aNumber of genes associated with the particular ingenuity pathway and differentially expressed in MT versus LT regions of OA samples by microarray analysis; P value calculated by Fisher’s exact test. bAdjusted P value for microarray corrected for multiple testing by the Benjamini–Hochberg method. *P <0.001 and **P <0.05 for quantitative reverse-transcription polymerase chain reaction (qRT-PCR); P <0.05 was considered significant comparing OA MT versus OA LT. P values determined by two-tailed unpaired Student’s t test.