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Table 2 Top ten upregulated and downregulated genes comparing lateral tibial bone (below intact cartilage) with medial tibial bone (below lesioned cartilage)

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

     Fold-change (MT vs. LT)
Accession number Gene symbol Gene name P valuea OA (microarray) Non-OA (microarray) OA (qRT-PCR)
Genes with increased expression in medial tibial bone   
  NM_000641 IL11 Interleukin-11 1.32 × 10–14 16.02 1.12 110.31*
  NM_006475 POSTN Periostin, osteoblast specific factor 1.48 × 10–10 15.65 1.55 9.68*
  NM_017680 ASPN Asporin 2.82 × 10–9 9.04 2.93 6.34*
  NM_057165 COL6A3 Collagen, type VI, alpha 3 9.65 × 10–10 8.27 1.33 5.11*
  NM_006086 TUBB3 Tubulin, beta 3 6.98 × 10–15 7.36 1.11 6.28*
  NM_000090 COL3A1 Collagen, type III, alpha 1 5.33 × 10–16 7.33 1.32 6.45*
  NM_033014 OGN Osteoglycin 7.24 × 10–10 6.69 1.70 9.33*
  NM_013989 DIO2 Deiodinase, iodothyronine, type II 1.58 × 10–11 6.20 1.31 5.74*
  NM_006240 PPEF1 Protein phosphatase, EF-hand calcium binding domain 1 5.31 × 10–13 6.14 1.97 4.51*
  NM_003701 TNFSF11 Tumor necrosis factor (ligand) superfamily, member 11 1.21 × 10–11 5.90 1.07 2.64*
Genes with decreased expression in medial tibial bone
  NM_000230 LEP Leptin 4.00 × 10–10 −23.27 −2.05 −18.99*
  NM_000384 APOB Apolipoprotein B 3.31 × 10–10 −16.88 −2.12 −10.20*
  NM_000668 ADH1B Alcohol dehydrogenase 1B (class I), beta polypeptide 2.27 × 10–7 −12.23 −1.95 NA
  NM_005623 CCL8 Chemokine (C–C motif) ligand 8 8.17 × 10–9 −10.50 −1.59 −6.00*
  NM_172367 TUSC5 Tumor suppressor candidate 5 4.22 × 10–10 −10.25 −1.89 −8.19*
  NM_175737 KLB Klotho beta 2.24 × 10–8 −10.00 −1.63 −6.09*
  NM_001204375 NPR3 Natriuretic peptide receptor C 1.36 × 10–10 −9.95 −1.38 −7.81*
  NM_002666 PLIN1 Perilipin 1 2.98 × 10–8 −9.60 −1.81 −5.88*
  NM_002591 PCK1 Phosphoenolpyruvate carboxykinase 1 1.03 × 10–9 −9.01 −1.87 −5.44*
  NM_001198950 MYO16 Myosin XVI 5.81 × 10–7 −8.84 −1.93 NA
  1. LT, lateral tibial; MT, medial tibial; NA, not analyzed; OA, osteoarthritis. aAdjusted P value for microarray corrected for multiple testing by the Benjamini–Hochberg method. *P <0.001 for quantitative reverse-transcription polymerase chain reaction (qRT-PCR), comparing OA MT versus OA LT. P values were determined by two-tailed unpaired Student’s t test.