Table 1.
Mitochondrial proteins altered in GBM
| Protein ID | Gene name | Protein name | p-valuea | Fold changeb | # pepc |
Scored |
|---|---|---|---|---|---|---|
| INCREASED in GBM | ||||||
| IPI00465436 | CAT | Catalase | 1.45E–07 | 6.1 | 3 | 97 |
| IPI00002520 | SHMT2 | Serine hydroxymethyltransferase | 3.48E–06 | 5.5 | 2 | 82 |
| IPI00419237 | LAP3 | Isoform1 of aminopeptidase | 0.0001 | 5.1 | 7 | 347 |
| IPI00026105 | SCP2 | Isoform SCPx Non-specific lipid-transfer protein | 0.0002 | 5.5 | 2 | 62 |
| IPI00215901 | AK2 | Adenylate kinase 2 | 0.0002 | 5.3 | 4 | 223 |
| IPI00017726 | HSD17B10 | Isoform 1 3-hydroxyacyl-CoA dehydrogenase 2 | 0.0003 | 3.4 | 7 | 538 |
| IPI00032103 | GATM | Glycine amidinotransferase | 0.0006 | 6.0 | 9 | 595 |
| IPI00096066 | SUCLG2 | Succinyl-CoA ligase [GDP-forming] subunit β | 0.0008 | 10 | 4 | 167 |
| IPI00033217 | AASS | Alpha-aminoadipic semialdehyde synthase | 0.0012 | 4.5 | 4 | 184 |
| IPI00019906 | BSG | Isoform 2 of Basigin | 0.0014 | 2.1 | 3 | 137 |
| IPI00026958 | FDXR | NADPH:adrenodoxin oxidoreductase | 0.0015 | 3.2 | 3 | 107 |
| IPI00306748 | ABCB7 | ATP-binding cassette sub-family B member | 0.0016 | 2.2 | 2 | 133 |
| IPI00011201 | ME2 | NAD-dependent malic enzyme | 0.0023 | 2.2 | 4 | 309 |
| IPI00218342 | MTHFD1 | C-1-tetrahydrofolate synthase | 0.0024 | 8.3 | 2 | 102 |
| IPI00291262 | CLU | Isoform1 of Clusterin | 0.0027 | 5.7 | 8 | 545 |
| IPI00022314 | SOD2 | Superoxide dismutase [Mn] | 0.0029 | 4.5 | 16 | 1,408 |
| IPI00910602 | NEFH | Isoform1 of Neurofilament heavy polypeptide | 0.0032 | 3.5 | 9 | 377 |
| IPI00000874 | PRDX1 | Peroxiredoxin-1 | 0.0034 | 2.1 | 13 | 664 |
| IPI00003482 | DECR1 | 2,4-Dienoyl-CoA reductas | 0.0045 | 2.4 | 9 | 497 |
| IPI00001960 | CLIC4 | Chloride intracellular channel protein 4 | 0.0048 | 6.3 | 10 | 500 |
| IPI00005040 | ACADM | Medium-chain specific acyl-CoA dehydrogenase | 0.0049 | 4.5 | 6 | 219 |
| IPI00011937 | PRDX4 | Peroxiredoxin-4 | 0.0052 | 2.9 | 5 | 279 |
| DECREASED in GBM | ||||||
| IPI00032904 | SNCB | Beta-synuclein | 8.81E–05 | 0.2 | 4 | 355 |
| IPI00333763 | GLRX5 | Glutaredoxin-related protein 5 | 0.0005 | 0.3 | 2 | 64 |
| IPI00018246 | HK1 | Hexokinase-1 | 0.0014 | 0.4 | 48 | 3,168 |
| IPI00304814 | GPX4 | Phospholipid hydroperoxide glutathione peroxidase | 0.0016 | 0.4 | 3 | 84 |
| IPI00026516 | OXCT1 | Succinyl-CoA:3-ketoacid-coA transferase 1 | 0.0018 | 0.4 | 21 | 1,684 |
| IPI00658109 | CKMT1B | Creatine kinase, ubiquitous | 0.0019 | 0.3 | 23 | 1,698 |
| IPI00017802 | AUH | Methylglutaconyl-CoA hydratase | 0.0021 | 0.1 | 2 | 50 |
| IPI00217232 | SUCLA2 | Isoform2 succinyl-CoA ligase [ADP-forming] β | 0.0025 | 0.3 | 9 | 357 |
| IPI00010415 | ACOT7 | Isoform1 cytosolic acyl co-A thioester hydrolase | 0.0026 | 0.4 | 3 | 113 |
| IPI00003970 | ME3 | NADP-dependent malic enzyme | 0.0030 | 0.3 | 9 | 466 |
| IPI00011770 | NDUFA4 | NADH dehydrogenase [ubiquinone]1α, subunit 4 | 0.0035 | 0.4 | 3 | 78 |
| IPI00289159 | GLS | Isoform KGA of Glutaminase kidney isoform | 0.0038 | 0.3 | 22 | 1,484 |
| IPI00216085 | COX6B1 | Cytochrome c oxidase subunit 6B1 | 0.0039 | 0.3 | 7 | 434 |
| IPI00386271 | SLC25A12 | Calcium-binding mitochondrial carrier Aralar1 | 0.0039 | 0.3 | 22 | 1,460 |
| IPI00020510 | CISD1 | CDGSH iron sulfur domain-containing protein 1 | 0.0041 | 0.3 | 6 | 272 |
| IPI00479905 | NDUFB10 | NADH dehydrogenase [ubiquinone]1β, 10 | 0.0042 | 0.4 | 6 | 303 |
| IPI00029558 | NDUFC2 | NADH dehydrogenase [ubiquinone] 1, C2 | 0.0048 | 0.3 | 2 | 45 |
| IPI00003856 | ATP6V1E1 | V-type proton ATPase subunit E 1 | 0.0049 | 0.4 | 5 | 278 |
The 40 most significantly different mitochondrial proteins in GBM relative to peritumoural controls (p ≤ 0.05, ≥2-fold change, ranked by p-value). For a list of all 117 significantly altered mitochondrial proteins (p ≤ 0.05, ≥2-fold change) see supplementary information S2. S2 also lists non-mitochondrial proteins significantly altered and all unaltered proteins identified with ≥2 peptides
The protein accession number (IPI), gene name, and protein name are listed for each altered protein, together with: a p-value evaluated by one-way ANOVA on intensity data (computed using Progenesis)
b Ratio of the average protein intensity in GBM and control samples, measured by Progenesis
c Number of peptides used for quantitation
d Protein identification score (calculated by Mascot)