Table 1.
Summary of disease relevant modules
| Module | # Proteins | Time-resolved change | Cell enrichment | Top GO term | Top 3 proteins |
|---|---|---|---|---|---|
| 1. Black | 38 | Late disease increase, increased in recovery | Oligodendrocyte (P = 5.2e-6) |
Ensheathment of neurons (P = 8.1e-7) |
CA14 ADSSL1 MOG |
| 2. Blue | 135 | Early maintained disease increase, control levels in recovery | - |
ER to Golgi anterograde transport (P = 1.5e-8) |
PLBD2 TDP-43 NAPA |
| 3. Brown | 218 | Late disease increase, partially reversed in recovery |
Microglia (P = 3.5e-5) |
Ubiquinone biosynthetic process (P = 1.1e-8) |
HADHA VAT1 ASS1 |
| 4. Turquoise | 409 | Decreased in disease, partially reversed in recovery |
Neuron (P = 1.5e-6) |
Neuronal system (P = 4.3e-29) |
PRKCB PCLK1 PPP3CA |
| 5. Magenta | 23 | Increased at pre-onset and onset, partially reversed in early and late, control levels in recovery | - |
HSP90 chaperone cycle (P = 2.0e-5) |
CDC37 TOMM34 CALR |
The number of proteins (# proteins) that are members of each module, the protein abundance profile (time-resolved change) across time in control and disease mice, the main contributing cell type (cell enrichment), the top gene ontology (GO) term shows the biological processes that define each module, and the top 3 proteins with highest module membership values (kMe). Two-sided Fisher’s exact test to determine whether cell-type enrichment was statistically significant within each module (P < 0.05). Protein sets were analyzed using Metascape108 where significantly enriched gene ontology terms of each module were identified using the hypergeometric test and Benjamini-Hochberg P value correction algorithm.