Table 3.
Verification of μDIA untargeted proteomics quantification by targeted PRM-MS
| Gene | μDIA fold-change | PRM fold-change | p-value μDIA | p-value PRM |
|---|---|---|---|---|
| Fabp7 | 1.95 | 1.88 | 1.47E-06 | 3.13E-03 |
| Slc6a11 | −1.57 | −2.44 | 6.96E-06 | 2.64E-04 |
| Slc4a4 | −1.43 | −2.16 | 3.36E-05 | 1.23E-02 |
| Slc38a3 | −1.52 | −1.29 | 1.27E-04 | 1.37E-01 |
| Gpr37l1 | −1.67 | downregulated | 2.60E-03 | 2.29E-06 |
| Nadk2 | 2.58 | 2.57 | 2.24E-05 | 6.07E-04 |
| Sfxn5 | −1.38 | −1.38 | 8.63E-03 | 1.40E-03 |
| Fasn | −1.49 | −1.68 | 4.68E-05 | 6.67E-03 |
| Ugt8 | −4.28 | −3.71 | 9.16E-05 | 2.74E-03 |
| Mbp | −1.46 | −2.16 | 1.67E-02 | 7.17E-03 |
| Ntrk2 | −1.74 | not detected | 2.48E-02 | not detected |
| Slc27a1 | 1.41 | 1.94 | 8.11E-02 | 1.67E-02 |
| Acot1 | 1.53 | 1.43 | 8.26E-04 | 1.49E-02 |
| Acsl6 | −1.49 | −1.88 | 1.46E-03 | 4.91E-02 |
| Slc25a18 | −1.55 | −1.20 | 2.24E-03 | 4.16E-01 |
| Ca2 | −1.31 | −1.41 | 5.37E-03 | 3.45E-02 |
| ∗Slc6a17 | −1.07 | −1.45 | 2.09E-01 | 2.44E-01 |
| ∗Stxbp5l | −1.16 | −1.17 | 1.17E-01 | 4.59E-01 |
| ∗Cryl1 | 1.18 | −1.14 | 2.56E-01 | 4.88E-01 |
| ∗Slc16a1 | −1.15 | −1.15 | 1.44E-01 | 1.49E-01 |
Comparison of the average fold-change ratio of proteins in (GFAPTg;Gfap+/R236H/wild-type mice) and associated p-values in the μDIA versus PRM-MS experiments for 20 proteins selected for confirmation (n = 4 per genotype in both experiments). (∗) indicates proteins designated as negative controls with insignificant p-values from μDIA untargeted proteomics and PRM-MS. The “downregulated” result indicates the protein was only detectable in wild-type mice.