Table 3

Genes with increased expression in synovial fibroblasts from DA.F344 (Cia5d) compared with DA
Gene Symbold
 Definitiona
 Accession number
 DA mean
 Cia5d mean
 Fold change
 P valueb
 Overall rankc
Cancer, Cell Cycle, DNA replication, recombination and repair
Gadd45b
 Growth arrest and DNA-damage-inducible 45 beta
NM_001008321.1
 214.12
 412.97
 1.9
 0.00572
 39
Gmfg
 Glia maturation factor, gamma (Gmfg)
 NM_181091.2
 1359.39
 2261.87
 1.7
 0.00817
 54
Plekhg2_predicted
 Pleckstrin homology domain containing, family G (with RhoGef domain) member 2 (predicted)
 XM_214862.3
 91.97
 147.62
 1.6
 0.00784
 52
Lox
 Lysyl oxidase
 XM_579391.1
 15755.11
 24559.79
 1.6
 0.00198
 12
Brwd3_predicted
 Similar to bromo domain-containing protein disrupted in leukemia (LOC317213)
 XM_228518.3
 43.85
 52.99
 1.2
 0.00596
 43
Aph1a
 Similar to anterior pharynx defective 1 homolog A (C. elegans)
 XM_345251.2
 2820.66
 3246.28
 1.2
 0.00046
 4
Pex19_predictede
 Peroxisome biogenesis factor 19 (predicted)
 XM_225711.3
 119.41
 135.98
 1.1
 0.00561
 38








Cell Signaling






Fkbp7_predicted
 FK506 binding protein 7 (predicted)
 XM_215758.3
 784.02
 1450.53
 1.9
 0.00578
 40
Ncor1
 Nuclear receptor co-repressor 1
 XM_577103.1
 420.35
 679.65
 1.6
 0.00454
 32
Tap1
 Transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)
 NM_032055.1
 190.32
 288.49
 1.5
 0.00878
 61
Prnp
 Prion protein
 XM_579340.1
 17242.89
 24050.29
 1.4
 0.00029
 3
Fzd4
 Frizzled homolog 4 (Drosophila)
 NM_022623.1
 44.45
 60.14
 1.4
 0.00406
 26








Gene expression






H1f0
 H1 histone family, member 0
 NM_012578.2
 150.12
 229.40
 1.5
 0.00707
 47
Cell-Cell Interaction






Fath
 Hypothetical gene supported by NM_031819; Fath fat tumor suppressor homolog (Drosophila)
 XM_579538.1
 3803.04
 5806.86
 1.5
 0.00206
 13








Extracellular Matrix






Col5a1
 Collagen, type V, alpha 1 (Col5a1)
 NM_134452.1
 7240.26
 9852.22
 1.4
 0.00807
 53








Others






Gtlf3b_predicted
 Gene trap locus F3b (predicted)
 XM_343907.2
 78.16
 175.41
 2.2
 0.00003
 1
Olfml2b_predicted
 Olfactomedin-like 2B (predicted)
 XM_222868.3
 1336.30
 2949.43
 2.2
 0.00241
 17
Gsdmdc1_predicted
 Gasdermin domain containing 1 (predicted)
 XM_235434.3
 458.74
 831.39
 1.8
 0.00295
 20
Trim41_predicted
 Tripartite motif-containing 41 (predicted)
 XM_220357.3
 422.66
 732.37
 1.7
 0.00100
 7
LOC498815
 Hypothetical gene supported by AY771707
 XM_579873.1
 243.56
 366.68
 1.5
 0.00281
 19
LOC304860
 Similar to N-acetylneuraminate pyruvate lyase
 XM_222736.3
 270.64
 401.65
 1.5
 0.00176
 11
Setdb2_predicted
 SET domain, bifurcated 2 (predicted)
 XM_224248.3
 94.38
 136.31
 1.4
 0.00945
 66
LOC361448
 Similar to cDNA sequence BC013529 (predicted)
 XM_341726.2
 2852.12
 4043.46
 1.4
 0.00071
 5
LOC360899
 Similar to SERTA domain containing 4
 XM_341174.2
 1771.29
 2489.20
 1.4
 0.00886
 63
Ormdl2_predicted
 ORM1-like 2 (S. cerevisiae) (predicted)
 XM_213832.3
 1996.56
 2773.15
 1.4
 0.00549
 37
LOC498067
 Similar to RIKEN cDNA 2310003P10 (LOC498067), mRNA.
 XM_573266.1
 368.00
 494.10
 1.3
 0.00860
 58
Nit1
 Nitrilase 1
 NM_182668.1
 3397.58
 4472.84
 1.3
 0.00296
 21
Fam18b_predicted
 Family with sequence similarity 18, member B (predicted)
 XM_219680.3
 2915.92
 3746.20
 1.3
 0.00447
 31
Ubxd2_predicted
 UBX domain containing 2 (predicted)
 XM_573443.1
 2018.75
 2569.23
 1.3
 0.00411
 27

aEstrogen; ER, estrogen-induced, or estrogen-receptor signaling or degradation are marked in bold. bt test. cOrder (logistic regression) in the list of 66 genes differentially expressed between DA and DA.F344(Cia5d). dCancer and invasion associated genes are in italics. eIncreased expression in invading breast cancers.

Laragione et al. Arthritis Research & Therapy 2008 10:R92   doi:10.1186/ar2476