Table 4.
Protein name, mass spectrometry data, fold differences between subgroups and their statistical significance are compiled for 40 synovial fluid associated proteins.
| Normalised spot volume – mean (SD) |
Inter-group comparison – fold difference, unpaired t-test (p < 0.05) |
Mass Spectrometry spectrometry data – MALDI-TOF/TOF |
|||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Spot ID | Oligo | Ext oligo | Poly | O vs EO | p | O vs P | p | EO vs P | p | Protein name | Accesion number | pI | MW (KDa) | Mascot score | Sequence coverage | Matched peptides | Verification CID ions |
| 20 | 41.89 (36.27) | 201.65 (148.45) | 151.27 (151.74) | 4.8 | 0.049 | 3.6 | 0.086 | − 1.3 | 0.547 | Albumin, isoform CRA-t | 119626083 | 6.66 | 58614 | 53 | 5 | 3 | 2 |
| 26 | 260.05 (236.07) | 266.79 (190.06) | 1001.18 (668.96) | 1.0 | 0.953 | 3.8 | 0.017 | 3.8 | 0.018 | Leucine -rich alpha-2-glycoprotein 1 | 16418467 | 6.45 | 38154 | 189 | 23 | 7 | 2 |
| 27 | 193.16 (118.20) | 492.74 (375.05) | 725.81 (430.15) | 2.6 | 0.115 | 3.8 | 0.011 | 1.5 | 0.311 | HP protein | 47124562 | 8.48 | 31362 | 80 | 28 | 8 | 3 |
| 32 | 26.56 (31.24) | 76.19 (45.75) | 55.12 (37.80) | 2.9 | 0.018 | 2.1 | 0.089 | − 1.4 | 0.364 | Albumin, isoform CRA-k | 119626074 | 5.97 | 47257 | 130 | 24 | 11 | 3 |
| 37 | 329.60 (379.47) | 566.12 (290.03) | 841.30 (654.40) | 1.7 | 0.206 | 2.6 | 0.046 | 1.5 | 0.359 | Apolipoprotein A-II isoform CRA_c | 119573006 | 6.15 | 8958 | 108 | 32 | 4 | 1 |
| 39 | 179.67 (179.91) | 429.56 (301.20) | 381.20 (193.98) | 2.4 | 0.047 | 2.1 | 0.032 | − 1.1 | 0.721 | No identification | ~ | ~ | ~ | ~ | ~ | ~ | ~ |
| 41 | 722.35 (584.88) | 1700.28(614.83) | 1641.77 (1240.87) | 2.4 | 0.006 | 2.3 | 0.084 | − 1.0 | 0.918 | Serum Albumin with S-Naproxen, Chain A | 168988718 | 5.63 | 65778 | 322 | 32 | 25 | 8 |
| 42 | 17.59 (8.62) | 34.368 (16.56) | 39.75 (24.79) | 2.0 | 0.014 | 2.3 | 0.042 | 1.2 | 0.655 | Apo-serum transferrin (non-glycosylated), Chain A | 110590597 | 6.58 | 74643 | 377 | 38 | 26 | 8 |
| 43 | 69.84 (70.74) | 96.93 (47.48) | 153.98 (68.75) | 1.4 | 0.417 | 2.2 | 0.019 | 1.6 | 0.108 | Vitamin D-binding protein/ group specific component | 455970 | 5.34 | 52916 | 205 | 9 | 7 | 5 |
| 694 | 141.51 (107.45) | 459.84 (408.33) | 512.87 (396.27) | 3.2 | 0.120 | 3.6 | 0.036 | 1.1 | 0.811 | Albumin, isoform CRA_h | 119626071 | 5.92 | 68568 | 75 | 17 | 9 | 3 |
| 769 | 179.08 (237.44) | 540.87 (424.53) | 521.11 (518.79) | 3.0 | 0.038 | 2.9 | 0.116 | − 1.0 | 0.941 | Albumin, isoform CRA_k | 119626074 | 5.97 | 47257 | 255 | 32 | 15 | 4 |
| 770 | 292.30 (262.61) | 218.54 (112.10) | 658.83 (464.93) | − 1.3 | 0.526 | 2.3 | 0.043 | 3.0 | 0.033 | No Identification | ~ | ~ | ~ | ~ | ~ | ~ | ~ |
| 872 | 263.68 (207.60) | 635.23 (386.92) | 645.72 (414.37) | 2.4 | 0.020 | 2.4 | 0.040 | 1.0 | 0.962 | HP Protein | 47124562 | 8.48 | 31362 | 218 | 40 | 13 | 3 |
| 892 | 66.05 (57.56) | 152.32 (114.73) | 154.37 (109.81) | 2.3 | 0.054 | 2.3 | 0.035 | 1.0 | 0.974 | Albumin, isoform CRA_h | 119626071 | 5.92 | 68568 | 225 | 19 | 12 | 5 |
| 900 | 279.14 (251.24) | 509.13 (407.48) | 640.99 (462.64) | 1.8 | 0.167 | 2.3 | 0.042 | 1.3 | 0.590 | Haptoglobin | 3337390 | 6.14 | 38209 | 232 | 31 | 14 | 3 |
| 904 | 43.29 (40.48) | 98.89 (65.47) | 59.66 (54.74) | 2.3 | 0.045 | 1.4 | 0.463 | − 1.7 | 0.245 | Serum Albumin with S-Naproxen, Chain A | 168988718 | 5.63 | 65778 | 340 | 23 | 16 | 7 |
| 5 | 2618.22 (4761.74) | 349.76 (558.22) | 6111.70 (6599.47) | − 7.5 | 0.150 | 2.3 | 0.196 | 17.5 | 0.044 | Albumin, isoform CRA_h | 119626071 | 5.92 | 68568 | 168 | 22 | 17 | 4 |
| 24 | 498.13 (550.89) | 407.73 (366.73) | 1743.37 (1484.23) | − 1.2 | 0.725 | 3.5 | 0.054 | 4.3 | 0.040 | Haptoglobin | 3337390 | 6.14 | 38209 | 191 | 33 | 14 | 3 |
| 25 | 1015.31 (912.91) | 1130.96 (645.34) | 4293.33 (3251.87) | 1.1 | 0.788 | 4.2 | 0.028 | 3.8 | 0.031 | Leucine -rich alpha-2-glycoprotein 1 | 16418467 | 6.45 | 38154 | 124 | 16 | 5 | 3 |
| 29 | 1822.15 (1227.14) | 1659.83 (905.35) | 5152.16 (3376.72) | − 1.1 | 0.781 | 2.8 | 0.029 | 3.1 | 0.023 | Zinc-Alpha-2 Glycoprotein, Chain B | 4699583 | 5.7 | 31626 | 266 | 51 | 17 | 4 |
| 30 | 2921.00 (2723.47) | 2431.06 (956.73) | 7297.04 (5067.90) | − 1.2 | 0.599 | 2.5 | 0.026 | 3.0 | 0.033 | Complement Component C3c, Chain C | 78101271 | 4.79 | 39463 | 310 | 36 | 13 | 4 |
| 33 | 4.59 (4.69) | 1.93 (1.70) | 5.50 (2.28) | − 2.4 | 0.116 | 1.2 | 0.620 | 2.9 | 0.008 | Lipid-free Apolipoprotein A-I | 90108664 | 5.27 | 28061 | 91 | 26 | 6 | 3 |
| 36 | 6000.68 (5893.61) | 5767.56 (2843.52) | 15,013.18 (10385.59) | − 1.0 | 0.929 | 2.5 | 0.028 | 2.6 | 0.043 | Hemopexin | 11321561 | 6.55 | 51643 | 159 | 22 | 12 | 4 |
| 566 | 159.09 (245.58) | 32.79 (18.65) | 160.39 (136.42) | − 4.9 | 0.121 | 1.0 | 0.989 | 4.9 | 0.035 | Albumin, isoform CRA_k | 119626074 | 5.97 | 47257 | 326 | 23 | 11 | 5 |
| 746 | 186.38 (238.51) | 130.30 (67.38) | 414.46 (319.46) | − 1.4 | 0.480 | 2.2 | 0.092 | 3.2 | 0.044 | Albumin, isoform CRA_p | 119626064 | 8.42 | 25276 | 169 | 13 | 4 | 3 |
| 878 | 3545.92 (3336.53) | 2008.83 (776.53) | 4846.47 (2674.46) | − 1.8 | 0.173 | 1.4 | 0.376 | 2.4 | 0.022 | No Haptoglobin, isoform CRA_d | 119579601 | 6.31 | 39944 | 301 | 38 | 17 | 5 |
| 907 | 15.51 (13.98) | 15.43 (4.67) | 35.12 (24.09) | − 1.0 | 0.988 | 2.3 | 0.038 | 2.3 | 0.059 | Leucine -rich alpha-2glycoprotein 1 | 16418467 | 6.45 | 38154 | 90 | 21 | 7 | 2 |
| 976 | 6907.62 (8543.54) | 4224.08 (1702.29) | 8598.26 (4362.93) | − 1.6 | 0.336 | 1.2 | 0.616 | 2.0 | 0.040 | Albumin, isoform CRA_g | 119626070 | 5.66 | 22001 | 160 | 35 | 8 | 3 |
| 18 | 886.47 (935.84) | 162.80 (123.00) | 537.50 (382.84) | − 5.4 | 0.030 | − 1.6 | 0.284 | 3.3 | 0.032 | Immunoglobulin heavy chain variable region | 39937967 | 5.13 | 16841 | 86 | 38 | 7 | 1 |
| 236 | 582.96 (1659.82) | 36.57 (19.60) | 93.55 (61.25) | − 15.9 | 0.301 | − 6.2 | 0.352 | 2.6 | 0.039 | No Identification | ~ | ~ | ~ | ~ | ~ | ~ | ~ |
| 365 | 201.24 (265.85) | 48.39 (53.68) | 19.83 (15.50) | − 4.2 | 0.093 | − 10.1 | 0.048 | − 2.4 | 0.262 | Leucine -rich alpha-2-glycoprotein 1 | 16418467 | 6.45 | 38154 | 280 | 21 | 6 | 3 |
| 467 | 233.54 (236.91) | 33.72 (38.09) | 125.60 (199.55) | − 6.9 | 0.021 | − 1.9 | 0.311 | 3.7 | 0.244 | Albumin, isoform CRA_g | 119626070 | 5.66 | 22001 | 376 | 35 | 9 | 6 |
| 542 | 399.12 (305.67) | 134.22 (111.20) | 707.90 (946.32) | − 3.0 | 0.023 | 1.8 | 0.400 | 5.3 | 0.133 | Immunoglobulin kappa 1 light chain | 170684606 | 5.72 | 23238 | 177 | 40 | 6 | 3 |
| 663 | 312.00 (257.93) | 79.96 (28.35) | 220.35 (189.80) | − 3.9 | 0.015 | − 1.4 | 0.408 | 2.8 | 0.078 | No Identification | ~ | ~ | ~ | ~ | ~ | ~ | ~ |
| 699 | 644.84 (497.06) | 222.29 (72.19) | 795.35 (983.82) | − 2.9 | 0.020 | 1.2 | 0.666 | 3.6 | 0.145 | Immunoglobulin light chain | 149673887 | 6.97 | 233380 | 237 | 54 | 8 | 4 |
| 809 | 6.09 (4.56) | 2.24 (0.63) | 5.42 (4.21) | − 2.7 | 0.021 | − 1.1 | 0.750 | 2.4 | 0.074 | Albumin, isoform CRA_a | 119626064 | 6.45 | 25276 | 57 | 13 | 4 | 1 |
| 836 | 1133.55 (937.82) | 434.26 (340.27) | 998.09 (882.61) | − 2.6 | 0.045 | − 1.1 | 0.754 | 2.3 | 0.167 | Chain A, Human Serum Transferrin, N-lobe | 29726565 | 6.79 | 36533 | 649 | 41 | 16 | 9 |
| 865 | 1181.24 (706.11) | 482.13 (350.29) | 1189.55 (972.22) | − 2.5 | 0.040 | 1.0 | 0.983 | 2.5 | 0.090 | No Identification | ~ | ~ | ~ | ~ | ~ | ~ | ~ |
| 875 | 89.29 (63.09) | 36.63 (14.81) | 68.50 (70.85) | − 2.4 | 0.023 | − 1.3 | 0.510 | 1.9 | 0.256 | No identification | ~ | ~ | ~ | ~ | ~ | ~ | ~ |
| 947 | 137.42 (92.37) | 158.18 (45.03) | 74.58 (28.01) | 1.2 | 0.616 | − 1.8 | 0.055 | − 2.1 | 0.001 | Chain A, Human Vitamin D Binding Protein | 18655424 | 5.66 | 51183 | 363 | 20 | 8 | 4 |
Spot trypsin digests were initially identified using matrix assisted laser desorption ionisation (MALDI-TOF) and confirmed with nano-electrospray mass spectra (nESI-MS/MS), correlated to compiled peptide data (Matrixscience). The number of matching peptide (MP) and collision induced dissociation (CID) ions used to verify protein identity are listed alongside sequence coverage and Mascot score. Mascot used the Mowse scoring algorithm [17] This indicates that the identity is significant if it would be expected to occur at random with a frequency of less than 5%. p values in bold highlight inter-subgroup comparisons which reached statistical significance (p < 0.05) by unpaired t-test. Peptide ion sequence and peak lists can be found in Table 5.