Table 2. Proteins identified by 2D-DIGE LC-MS/MS with differential abundance in CDR 1 vs. CDR 0 CSF.
| Spot | BVA | GI number(s) | Protein | Change | p value | Protein |
| 1 | 4709 | 31543193 | hypothetical protein LOC146556 | −1.36 | 7.02E-04 | 1 |
| 2 | 5659 | 4502807 | chromogranin B | −1.31 | 1.18E-03 | 2 |
| 3 | 4683 | 4502101 | annexin I | −1.31 | 9.54E-04 | 3 |
| 4 | 4608 | 62089004 | chromogranin B | −1.24 | 6.49E-03 | |
| 181387 | cystatin C | 4 | ||||
| 134464 | secretogranin-2 | 5 | ||||
| 5 | 4297 | 4502807 | chromogranin B | −1.26 | 0.0157 | |
| 6 | 4545 | −1.34 | 3.86E-03 | |||
| 7 | 4695 | 4502807 | chromogranin B | −1.27 | 0.0115 | |
| 8 | 4044 | 4502807 | chromogranin B | −1.32 | 2.15E-03 | |
| 9 | 1314 | 1621283 | neuronal cell adhesion molecule (NrCAM) | −1.22 | 0.0119 | 6 |
| 10 | 1320 | 1621283 | neuronal cell adhesion molecule (NrCAM) | −1.33 | 6.31E-04 | |
| 11 | 1382 | 6651381 | neuronal cell adhesion molecule (NrCAM) | −1.28 | 9.53E-04 | |
| 12 | 1383 | 6651381 | neuronal cell adhesion molecule (NrCAM) | −1.25 | 6.64E-03 | |
| 13 | 4033 | 4502807 | chromogranin B | −1.21 | 0.0419 | |
| 14 | 4191 | 4502807 | chromogranin B | −1.23 | 0.0107 | |
| 15 | 4293 | 4502807 | chromogranin B | −1.33 | 4.64E-03 | |
| 825635 | calmodulin | 7 | ||||
| 16 | 4266 | 62089004 | chromogranin B | −1.22 | 0.0315 | |
| 17 | 4615 | −1.22 | 0.0188 | |||
| 18 | 4677 | −1.3 | 9.63E-03 | |||
| 19 | 4906 | 5454032 | S100 calcium binding protein A1 | −1.3 | 1.36E-04 | 8 |
| 62898141 | prosaposin | 9 | ||||
| 627391 | brain-associated small cell lung cancer antigen/NCAM-140/CD56 | 10 | ||||
| 17136078 | VGF nerve growth factor inducible precursor | 11 | ||||
| 20 | 5014 | 443295 | transthyretin | −1.3 | 2.10E-03 | 12 |
| 21 | 4884 | 224917 | apolipoprotein CIII | −1.34 | 9.78E-04 | 13 |
| 337760 | prosaposin/cerebroside sulfate activator protein | |||||
| 22 | 3423 | 39654998 | chain A, Hr1b Domain From Prk1 | −1.27 | 0.0133 | 14 |
| 32171249 | prostaglandin H2 D-isomerase/beta trace | 15 | ||||
| 23 | 3470 | 17402888 | neuronal pentraxin receptor | −1.25 | 7.23E-03 | 16 |
| 114593356 | extracellular superoxide dismutase (SOD3) | 17 | ||||
| 24 | 4954 | 34616 | beta-2 microglobulin | −1.3 | 4.15E-03 | 18 |
| 25 | 3436 | 32171249 | prostaglandin H2 D-isomerase | −1.22 | 0.0266 | |
| 178775 | proapolipoprotein | 19 | ||||
| 39654998 | chain A, Hr1b Domain From Prk1 | |||||
| 26 | 3714 | −1.27 | 0.03 | |||
| 27 | 4922 | 39654998 | chain A, Hr1b Domain From Prk1 | −1.27 | 0.0194 | |
| 28 | 3786 | 2072129 | chromogranin A | −1.38 | 8.96E-03 | 20 |
| 29 | 4076 | 7341255 | brain acetylcholinesterase putative membrane anchor | −1.25 | 0.0375 | 21 |
| 30 | 4111 | 62089004 | chromogranin B | −1.28 | 0.0206 | |
| 31 | 4167 | 4502807 | chromogranin B | −1.29 | 0.0207 | |
| 32 | 2652 | 28373309 | gelsolin | −1.23 | 0.0346 | 22 |
| 33 | 1313 | 6651381 | neuronal cell adhesion molecule (NrCAM) | −1.19 | 8.08E-03 | |
| 34 | 1372 | 1620909 | ceruloplasmin | −1.19 | 9.00E-03 | 23 |
| 1483187 | inter-alpha-trypsin inhibitor family heavy chain-related protein | 24 | ||||
| 31874098 | hypothetical protein (NrCAM) | |||||
| 6651381 | neuronal cell adhesion molecule (NrCAM) | |||||
| 35 | 1387 | 68534652 | neuronal cell adhesion molecule (NrCAM) | −1.29 | 8.16E-05 | |
| 1620909 | ceruloplasmin | |||||
| 36 | 4808 | 337760 | prosaposin/cerebroside sulfate activator protein | −1.22 | 0.0114 | |
| 37 | 1319 | 68534652 | neuronal cell adhesion molecule (NrCAM) | −1.19 | 0.0198 | |
| 1942284 | ceruloplasmin | |||||
| 38 | 1386 | 6651381 | neuronal cell adhesion molecule (NrCAM) | −1.29 | 1.24E-03 | |
| 39 | 1353 | 21706696 | calsyntenin 1 | −1.22 | 0.0417 | 25 |
| 40 | 1329 | 1621283 | neuronal cell adhesion molecule (NrCAM) | −1.22 | 4.61E-03 | |
| 41 | 2456 | 5802984 | UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 1 | −1.13 | 0.0449 | 26 |
| 42 | 2550 | 20178323 | pigment epithelium-derived factor precursor (PEDF)/Serpin-F1/EPC-1 | −1.15 | 0.022 | 27 |
| 43 | 2125 | 21071039 | carnosinase 1 | −1.21 | 0.0245 | 28 |
| 44 | 2131 | 21071039 | carnosinase 1 | −1.19 | 0.049 | |
| 45 | 2152 | 21071039 | carnosinase 1 | −1.15 | 0.0366 | |
| 46 | 5614 | 21071039 | carnosinase 1 | −1.18 | 0.0109 | |
| 47 | 2166 | 21071039 | carnosinase 1 | −1.21 | 0.0122 | |
| 48 | 2328 | 416180 | man9-mannosidase/α1,2-mannosidase IA | −1.16 | 0.0464 | 29 |
| 49 | 3360 | −1.15 | 0.045 | |||
| 50 | 3447 | 32171249 | prostaglandin H2 D-isomerase/beta trace | −1.19 | 0.0334 | |
| 51 | 3546 | 1621283 | neuronal cell adhesion molecule (NrCAM) | −1.17 | 0.0368 | |
| 32171249 | prostaglandin H2 D-isomerase/beta trace | |||||
| 52 | 4745 | 443295 | transthyretin | −1.26 | 0.0181 | |
| 53 | 3032 | 11056046 | nectin-like molecule-1/SynCAM3/TSLL1 | −1.13 | 0.0472 | 30 |
| 54 | 3718 | 39654998 | chain A, Hr1b Domain From Prk1 | −1.14 | 0.0455 | |
| 32171249 | prostaglandin H2 D-isomerase/beta trace | |||||
| 55 | 4902 | 14277770 | apolipoprotein C-Ii | −1.19 | 0.0495 | 31 |
| 337760 | prosaposin/cerebroside sulfate activator protein | |||||
| 2072129 | chromogranin A | |||||
| 56 | 3290 | 409725 | carbonic anhydrase IV | −1.14 | 0.0141 | 32 |
| 57 | 4379 | 17942890 | transthyretin | −1.15 | 0.0219 | |
| 39654998 | chain A, Hr1b Domain From Prk1 | |||||
| 34999 | cadherin 2 precursor | 33 | ||||
| 58 | 4388 | 32171249 | prostaglandin H2 D-isomerase/beta trace | −1.14 | 0.0218 | |
| 39654998 | chain A, Hr1b Domain From Prk1 | |||||
| 443295 | transthyretin | |||||
| 59 | 2192 | 21071039 | carnosinase 1 | −1.34 | 6.56E-03 | |
| 532198 | angiotensinogen | 34 | ||||
| 5531817 | secretogranin III | 35 | ||||
| 9665262 | EGF-containing fibulin-like extracellular matrix protein 1/Fibulin-3 | 36 | ||||
| 177933 | alpha-1-antichymotrypsin | 37 | ||||
| 4504893 | kininogen 1 | 38 | ||||
| 36573 | vitronectin | 39 | ||||
| 60 | 5336 | 443295 | transthyretin | −1.17 | 0.0301 | |
| 61 | 3009 | 178855 | apolipoprotein J/clusterin | −1.26 | 0.0288 | 40 |
| 4557325 | apolipoprotein E | 41 | ||||
| 62 | 3042 | 4557325/178853 | apolipoprotein E | −1.21 | 0.047 | |
| 338305 | apolipoprotein J/clusterin | |||||
| 63 | 3016 | 338305 | apolipoprotein J/clusterin | −1.32 | 6.69E-05 | |
| 64 | 3050 | 4557325/178853 | apolipoprotein E | −1.24 | 5.19E-04 | |
| 178855 | apolipoprotein J/clusterin | |||||
| 65 | 3075 | 4557325/178853 | apolipoprotein E | −1.42 | 5.59E-06 | |
| 178855 | apolipoprotein J/clusterin | |||||
| 66 | 3038 | 4557325/178853 | apolipoprotein E | −1.41 | 2.84E-05 | |
| 178855 | apolipoprotein J/clusterin | |||||
| 67 | 3301 | 178849 | apolipoprotein E | −1.4 | 1.29E-05 | |
| 68 | 3182 | 4557325/178853 | apolipoprotein E | −1.41 | 3.43E-04 | |
| 178855 | apolipoprotein J/clusterin | |||||
| 69 | 2443 | 532198 | angiotensinogen | −1.2 | 6.85E-03 | |
| 70 | 2493 | 4503009 | carboxypeptidase E precursor | −1.23 | 6.09E-03 | 42 |
| 71 | 5621 | 532198 | angiotensinogen | −1.17 | 0.0434 | |
| 72 | 5624 | 532198 | angiotensinogen | −1.22 | 0.0147 | |
| 73 | 5622 | 553181 | angiotensinogen | −1.17 | 0.04 | |
| 74 | 5625 | 532198 | angiotensinogen | −1.16 | 0.0423 | |
| 75 | 5627 | −1.22 | 0.0113 | |||
| 76 | 2849 | 4557325 | apolipoprotein E | −1.28 | 6.26E-03 | |
| 77 | 5009 | 443295 | transthyretin | −1.24 | 0.0268 | |
| 78 | 5033 | 443295 | transthyretin | −1.27 | 4.59E-03 | |
| 79 | 5078 | 443295 | transthyretin | −1.2 | 0.0144 | |
| 80 | 2958 | 4504067 | aspartate aminotransferase 1 | −1.22 | 8.60E-03 | 43 |
| 81 | 3657 | 32171249 | prostaglandin H2 D-isomerase/beta trace | −1.22 | 3.07E-03 | |
| 82 | 3867 | −1.28 | 0.0437 | |||
| 83 | 3176 | 4557325 | apolipoprotein E | −1.63 | 3.03E-04 | |
| 84 | 3228 | 4557325 | apolipoprotein E | −1.4 | 1.39E-03 | |
| 443295 | transthyretin | |||||
| 85 | 3074 | 4557325/178853 | apolipoprotein E | −2.36 | 4.41E-09 | |
| 86 | 5647 | 4557325 | apolipoprotein E | −2.35 | 2.92E-07 | |
| 87 | 3224 | 4557325/178853 | apolipoprotein E | −2.13 | 6.36E-07 | |
| 443295 | transthyretin | |||||
| 88 | 3126 | 4557325/178853 | apolipoprotein E | −1.93 | 7.55E-06 | |
| 89 | 5297 | −1.44 | 0.0473 | |||
| 90 | 3083 | 4557325 | apolipoprotein E | −1.7 | 2.82E-05 | |
| 91 | 2218 | 112911 | alpha-2-macroglobulin | 1.22 | 0.0282 | 44 |
| 92 | 2226 | 6573461 | apolipoprotein H | 1.27 | 0.0305 | 45 |
| 93 | 2252 | 112911 | alpha-2-macroglobulin | 1.26 | 0.0267 | |
| 4557327 | apolipoprotein H | |||||
| 94 | 3255 | 1.24 | 0.0315 | |||
| 95 | 3630 | 178775 | proapolipoprotein | 1.24 | 0.0287 | |
| 32171249 | prostaglandin H2 D-isomerase/beta trace | |||||
| 39654998 | chain A, Hr1b Domain From Prk1 | |||||
| 96 | 2229 | 177933 | alpha-1-antichymotrypsin | 1.42 | 3.09E-03 | |
| 97 | 2235 | 177933 | alpha-1-antichymotrypsin | 1.35 | 0.0388 | |
| 98 | 2261 | 177933 | alpha-1-antichymotrypsin | 1.3 | 6.04E-03 | |
| 99 | 2262 | 177933 | alpha-1-antichymotrypsin | 1.25 | 0.0294 | |
| 100 | 2220 | 1.29 | 0.0158 | |||
| 101 | 3084 | 1.16 | 0.0211 | |||
| 102 | 3508 | 32171249 | prostaglandin H2 D-isomerase/beta trace | 1.22 | 9.21E-03 | |
| 103 | 2825 | 23512215 | chitinase 3-like 1/YKL-40/HC-gp39 | 1.41 | 0.0167 | 46 |
| 104 | 2863 | 4557018 | chitinase 3-like 1/YKL-40/HC-gp39 | 1.5 | 0.0144 | |
| 105 | 2846 | 29726259 | chitinase 3-like 1/YKL-40/HC-gp39 | 1.46 | 7.88E-03 | |
| 106 | 2843 | 23512215 | chitinase 3-like 1/YKL-40/HC-gp39 | 1.32 | 0.0241 | |
| 107 | 3030 | 4557325 | apolipoprotein E | 2.46 | 3.70E-05 | |
| 108 | 3152 | 4557325/178853 | apolipoprotein E | 2.39 | 8.73E-07 | |
| 109 | 3203 | 178853 | apolipoprotein E | 3.23 | 3.13E-07 | |
| 110 | 3185 | 4557325/178853 | apolipoprotein E | 1.9 | 9.72E-04 | |
| 443295 | transthyretin | |||||
| 111 | 3069 | 338305 | apolipoprotein J/clusterin | 1.5 | 6.40E-04 | |
| 112 | 3079 | 1.64 | 4.47E-04 | |||
| 113 | 3133 | 178853 | apolipoprotein E | 1.49 | 8.66E-04 | |
| 338057 | apolipoprotein J/clusterin | |||||
| 114 | 3151 | 178853 | apolipoprotein E | 1.28 | 9.25E-03 | |
| 338057 | apolipoprotein J/clusterin | |||||
| 115 | 3249 | 4557325 | apolipoprotein E | 1.37 | 2.46E-03 | |
| 178855 | apolipoprotein J/clusterin | |||||
| 443295 | transthyretin | |||||
| 116 | 3118 | 4557325/178853 | apolipoprotein E | 1.64 | 9.96E-04 | |
| 117 | 5698 | 178855 | apolipoprotein J/clusterin | 1.73 | 5.82E-04 | |
| 118 | 2819 | 40737343 | C4B3 | 2 | 0.038 | 47 |
| 119 | 3137 | 4557325 | apolipoprotein E | −2.5 | 8.52E-07 |
Column 1, coded protein spot ID (as in Figure 1).
Column 2, biological variation analysis (BVA) number for spot generated by Decyder software.
Column 3, GI accession number(s) assigned to proteins identified by MASCOT.
Column 4, name of protein identified by MASCOT.
Column 5, fold-change in protein abundance; negative values indicate decreases in CDR 1 vs. CDR 0.
Column 6, p value of the CDR 1 versus CDR 0 comparison (Student's t test).
Column 7, consecutive numbering identifying proteins as unique.