Table 1: Identification of the differentially expressed proteins in the knee synovial tissue samples of the normal and vehicle-treated and QFGJS-treated CIA rats.

Spot no. Swiss-Prot accession number Theoretical Mr/pI Sequence coverage (%) Mowse scores Number of unique peptides Logarithm of average normalized volume Fold change of average normalized volume between groups Overall fold change of average normalized volume among three groups
NormalCIAQFGJSCIA/NormalQFGJS/CIAMax/MinbP value

1IgG-2a Ig gamma-2A chain C regionP2076035677/7.721121136.857.457.403.930.903.93
2Vim vimentinP3100053757/5.0630282126.346.606.911.822.043.730.011
3Gstp1 glutathione S-transferase PP0490623652/6.892026836.246.686.552.700.752.700.006
4Apolipoprotein C-III, isoform CRA_bP067597847/4.653616326.036.335.902.000.372.690.011
5Aldh6a1 methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrialQ0225358396/8.4479036.466.896.562.710.472.710.019
6Ca 3 carbonic anhydrase 3P1414129698/6.891410946.466.266.050.640.612.560.026
7Vdac2 voltage-dependent anion-selective channel protein 2P8115532353/7.441310426.456.456.081.000.422.380.045
8Tpi1 triosephosphate isomeraseP4850027345/6.891319527.036.816.710.610.792.10
9Ces3 carboxylesterase 3P1630362393/6.128826.526.206.310.481.282.080.035
10Des desminP4867553481/5.21717637.046.736.790.491.152.060.02
11RGD1560402 similar to phosphoglycerate kinase 1 (Pgk1)IPI0037291043604/6.15109736.636.716.391.200.482.080.034
12Pgam1 phosphoglycerate mutase 1P2511328928/6.671214337.197.477.431.940.911.940.018
13Anxa2 isoform short of Annexin A2Q07936-138939/7.552117277.016.926.730.800.651.920.015
14Gpx1 glutathione peroxidase 1P0404122472/7.661612136.616.886.731.900.711.900.033
15Ivd isovaleryl-CoA dehydrogenase, mitochondrialP1200746862/8.031411256.866.716.590.700.761.860.002
16Crp C-reactive proteinP4819925737/4.892119346.486.636.751.411.311.850.048
17Capzb F-actin-capping protein subunit betaQ5XI3230952/5.691529757.317.227.040.820.661.830.019
18Idh3a isocitrate dehydrogenase [NAD] subunit alpha, mitochondrialQ99NA540044/6.471519957.016.896.750.770.731.790.027
19RGD1565368 similar to glyceraldehyde-3-phosphate dehydrogenaseIPI0055403936045/8.44129747.157.016.900.710.781.790.006
20Selenbp1 selenium-binding protein 1Q8VIF753069/6.11614977.186.996.940.650.901.710.008
21Ogn osteoglycinIPI0036293134390/5.853028487.647.507.410.720.811.700.007
22Ldhb L-lactate dehydrogenase B chainP4212336874/5.71113647.337.207.100.740.811.680.049
23Actb actin, cytoplasmic 1P6071142052/5.291320947.136.996.910.740.831.630.023
24Serum albuminP0277071244/5.82912056.806.736.600.850.731.610.004
25S100a4 protein S100-A4P0594211997/5.045223367.327.537.501.600.951.600.038
26Np purine nucleoside phosphorylaseP8597332566/6.461212237.517.647.701.341.151.550.03
27Capza2 F-actin-capping protein subunit alpha-2Q3T1K533118/5.57913927.457.357.270.790.841.520.048
28Mdh1 malate dehydrogenase, cytoplasmicO8898936631/6.16127347.277.177.090.800.831.510.024
29Gsto1 glutathione S-transferase omega-1Q9Z33927936/6.251214636.866.806.700.880.781.460.05
30Apoe apolipoprotein EP0265035788/5.2333251117.157.317.241.450.851.450.015
31Aldh2 proteinP1188453791/5.831239667.357.207.210.711.031.420.045
32Anxa1 Annexin A1P0715039147/6.971631667.387.287.230.790.891.410.033

The differently expressed proteins with fold change of Max/Min less than 1.4 after Progenesis SameSpots software analysis, repetitive proteins analyzed by MALDI-TOF-MS/MS, and unique peptides less than 2 with Mascot software were excluded.
Denote as the ratio of maximum (Max) and minimum (Min) average normalized spot volumes among the normal rats, vehicle-treated CIA, rats and QFGJS-treated CIA rats.