Table 3.
Proteins increased in GVD
| Gene | Log2 FC C vs GVD | Log2 FC C vs Tangle | FDR C vs GVD | FDR C vs Tangle |
|---|---|---|---|---|
| MAPT | 1.949 | 2.885 | 0.000 | 0.000 |
| BRD2 | 1.785 | 0.404 | 0.004 | ns |
| ARHGDIA | 1.660 | 1.463 | 0.000 | 0.001 |
| UBE2QL1 | 1.553 | 0.932 | 0.000 | 0.012 |
| GFAP | 1.538 | 1.575 | 0.000 | 0.001 |
| PPIA | 1.537 | 1.344 | 0.001 | 0.003 |
| UBB* | 1.434 | 2.051 | 0.000 | 0.000 |
| CHMP1A | 1.358 | 0.744 | 0.000 | 0.034 |
| UNC13D | 1.297 | 1.477 | 0.043 | 0.014 |
| FKBP2 | 1.188 | 0.490 | 0.003 | ns |
| PPIB | 1.142 | 0.768 | 0.000 | 0.010 |
| ENO1 | 1.128 | 1.070 | 0.012 | 0.026 |
| PHPT1 | 1.065 | 0.000 | 0.005 | ns |
| CSNK1A1 | 1.060 | 0.721 | 0.000 | 0.001 |
| TOLLIP | 1.006 | 0.933 | 0.023 | 0.028 |
| PPIA | 0.981 | 0.769 | 0.013 | 0.044 |
| PEA15 | 0.980 | 0.838 | 0.000 | 0.000 |
| PGAM1 | 0.957 | 0.914 | 0.000 | 0.001 |
| TOMM34 | 0.944 | 0.793 | 0.000 | 0.000 |
| CALR | 0.928 | 0.416 | 0.002 | ns |
| ENSG00000276612 | 0.862 | 0.797 | 0.003 | 0.045 |
| HSPB1 | 0.807 | 1.064 | 0.000 | 0.000 |
| CNRIP1 | 0.799 | 0.693 | 0.008 | ns |
| PSD3 | 0.777 | 0.510 | 0.000 | 0.032 |
| PITHD1 | 0.776 | 0.000 | 0.023 | ns |
| ENO2 | 0.764 | 0.700 | 0.008 | 0.013 |
| CLU | 0.763 | 0.820 | 0.000 | 0.000 |
| CBR1 | 0.755 | 0.637 | 0.000 | 0.009 |
| HPCAL4 | 0.753 | 0.624 | 0.007 | 0.033 |
| ENO1 | 0.752 | 0.829 | 0.015 | 0.005 |
| MAP2 | 0.709 | 0.441 | 0.000 | 0.014 |
| HPCA | 0.709 | 0.432 | 0.019 | ns |
| PAFAH1B3 | 0.709 | 0.365 | 0.001 | ns |
| MLF2 | 0.704 | 0.409 | 0.000 | 0.040 |
| DNAJB6 | 0.666 | 0.472 | 0.000 | 0.005 |
| VIM | 0.646 | 0.832 | 0.000 | 0.000 |
| G3BP2 | 0.644 | 0.213 | 0.005 | ns |
| SCRN1 | 0.644 | 0.530 | 0.005 | 0.034 |
| CNDP2 | 0.642 | 0.642 | 0.003 | 0.016 |
| SNX3 | 0.636 | 0.302 | 0.000 | ns |
| EIF4H | 0.608 | 0.439 | 0.000 | 0.007 |
| GANAB | 0.606 | 0.181 | 0.005 | ns |
| HSD17B10 | 0.598 | 0.201 | 0.018 | ns |
| AIMP1 | 0.577 | 0.000 | 0.020 | ns |
| YWHAZ | 0.569 | 0.498 | 0.002 | 0.006 |
| CKB | 0.568 | 0.391 | 0.044 | ns |
| TKT | 0.563 | 0.459 | 0.005 | 0.037 |
| HSPA1B | 0.554 | 0.445 | 0.003 | 0.020 |
| EEF1B2 | 0.553 | 0.000 | 0.003 | ns |
| TPI1 | 0.538 | 0.276 | 0.034 | ns |
| PRDX5 | 0.533 | 0.468 | 0.008 | 0.033 |
| GSN | 0.523 | 0.437 | 0.005 | 0.064 |
| VTI1B | 0.519 | 0.161 | 0.044 | ns |
| PALM | 0.515 | 0.825 | 0.029 | 0.001 |
| KARS1 | 0.514 | 0.183 | 0.001 | ns |
| BLVRB | 0.511 | 0.629 | 0.000 | 0.000 |
| NEFL | 0.502 | 0.398 | 0.000 | 0.015 |
| CSNK1D | 0.488 | 0.492 | 0.001 | 0.001 |
| PAFAH1B1 | 0.478 | 0.325 | 0.044 | ns |
| NEFM | 0.478 | 0.362 | 0.000 | 0.059 |
| SSB | 0.478 | 0.000 | 0.001 | ns |
| TPPP | 0.473 | 0.462 | 0.022 | 0.008 |
| PDIA3 | 0.456 | 0.000 | 0.004 | ns |
| YWHAE | 0.449 | 0.384 | 0.000 | 0.001 |
| FSCN1 | 0.447 | 0.545 | 0.026 | 0.005 |
| SYN1 | 0.441 | 0.458 | 0.043 | 0.062 |
| PRKRA | 0.438 | 0.000 | 0.004 | ns |
| RTRAF | 0.429 | 0.194 | 0.042 | ns |
| AK1 | 0.405 | 0.368 | 0.003 | 0.020 |
| NCL | 0.398 | 0.000 | 0.013 | ns |
| SNX12 | 0.392 | 0.259 | 0.026 | ns |
| SDCBP | 0.388 | 0.193 | 0.027 | ns |
| EIF3CL | 0.385 | 0.000 | 0.044 | ns |
| CLINT1 | 0.379 | 0.000 | 0.017 | ns |
| ANXA5 | 0.374 | 0.378 | 0.036 | ns |
| INA | 0.370 | 0.288 | 0.004 | ns |
| CFL1 | 0.366 | 0.000 | 0.019 | ns |
| PIN1 | 0.362 | 0.261 | 0.004 | ns |
| MAP1B | 0.352 | 0.072 | 0.002 | ns |
| ATP6V1E1 | 0.341 | 0.400 | 0.008 | 0.022 |
| VTA1 | 0.322 | 0.225 | 0.026 | ns |
| CRYAB | 0.321 | 0.576 | 0.048 | 0.043 |
| HSPA8 | 0.295 | 0.331 | 0.046 | 0.006 |
| ME1 | 0.290 | 0.071 | 0.001 | ns |
| CAMK2D | 0.289 | 0.070 | 0.026 | ns |
| SND1 | 0.281 | 0.000 | 0.004 | ns |
| LRRC47 | 0.275 | 0.000 | 0.005 | ns |
| SUGT1 | 0.251 | 0.216 | 0.037 | 0.043 |
| USO1 | 0.238 | 0.000 | 0.005 | ns |
| PCBP1 | 0.222 | 0.000 | 0.020 | ns |
| RAB6A | 0.208 | 0.267 | 0.019 | 0.033 |
| RTN4 | 0.207 | 0.129 | 0.044 | ns |
All proteins that have an increased abundance in GVD are shown. The full set of regulated proteins is presented in Table S2. *Indicates this is the leading “razor protein”, but based on the peptide data these proteins cannot be distinguished from some other highly similar proteins. These are presented in Table S3. FC fold change, FDR false discovery rate, ns not significant, GVD granulovacuolar degeneration, C control