Table 2.
Gene set enrichment analysis
| Gene set | NES | p | FDR q |
| Colon, 1 month, enriched in Thy1-haSyn | |||
| Hallmark Oxidative Phosphorylation | 1.75 | 0.02 | 0.02 |
| KEGG Oxidative Phosphorylation | 1.81 | 0.01 | 0.02 |
| KEGG Butanoate Metabolism | 1.77 | 0.01 | 0.03 |
| KEGG Parkinson’s Disease | 1.81 | 0.01 | 0.03 |
| KEGG Huntington’s Disease | 1.89 | 0.00 | 0.03 |
| KEGG Alzheimer’s Disease | 1.81 | 0.01 | 0.04 |
| KEGG Drug Metabolism Cytochrome P450 | 1.56 | 0.02 | 0.20 |
| Striatum, 1 month, enriched in WT | |||
| KEGG Oxidative Phosphorylation | 1.88 | 0.00 | 0.02 |
| Hallmark Oxidative Phosphorylation | 1.80 | 0.02 | 0.02 |
| KEGG Parkinson’s Disease | 1.71 | 0.04 | 0.09 |
| KEGG Starch and Sucrose Metabolism | 1.58 | 0.04 | 0.13 |
| GO Golgi Vesicle Budding | 1.81 | 0.00 | 0.15 |
| KEGG Ribosome | 1.64 | 0.05 | 0.15 |
| KEGG Huntington’s Disease | 1.58 | 0.03 | 0.16 |
| GO Anaphase Promoting Complex Dependent Catabolic Process | 1.85 | 0.00 | 0.16 |
| KEGG Proteasome | 1.60 | 0.02 | 0.17 |
| GO Negative Regulation of cAMP Mediated Signaling | 1.73 | 0.00 | 0.17 |
| GO Proton Transmembrane Transport | 1.80 | 0.00 | 0.18 |
| GO ATP Synthesis Coupled Electron Transport | 1.73 | 0.05 | 0.18 |
| GO Respiratory Electron Transport Chain | 1.74 | 0.03 | 0.19 |
| GO COPII Coated Vesicle Budding | 1.74 | 0.00 | 0.21 |
| KEGG Alzheimer’s Disease | 1.51 | 0.05 | 0.22 |
| GO Oxidative Phosphorylation | 1.88 | 0.00 | 0.22 |
| GO Protein K11 Linked Ubiquitination | 1.69 | 0.00 | 0.23 |
| GO Electron Transport Chain | 1.70 | 0.00 | 0.23 |
| GO Vesicle Targeting to From or Within Golgi | 1.74 | 0.00 | 0.23 |
| GO Vesicle Budding from Membrane | 1.68 | 0.00 | 0.24 |
| KEGG Arachidonic Acid Metabolism | 1.46 | 0.03 | 0.24 |
| GO Cytochrome Complex Assembly | 1.76 | 0.00 | 0.25 |
| Striatum, 3 months, enriched in WT | |||
| Hallmark Pancreas Beta Cells | 1.73 | 0.00 | 0.02 |
| Hallmark KRAS Signaling Down | 1.39 | 0.08 | 0.20 |
| Hallmark Fatty Acid Metabolism | 1.41 | 0.07 | 0.20 |
| Hallmark MTORC1 Signaling | 1.37 | 0.01 | 0.20 |
| Hallmark Oxidative Phosphorylation | 1.40 | 0.15 | 0.22 |
| Hallmark Glycolysis | 1.34 | 0.06 | 0.22 |
Gene sets enriched at the recommended threshold for GSEA (FDR q-value < 0.25) are shown. There were none meeting this threshold for the following: colon 1 month enriched in WT, colon 3 months enriched in Thy1-haSyn or WT, striatum 1 and 3 months enriched in Thy1-haSyn. Enrichments with nominal p < 0.05 or FDR q-value < 0.25 are provided in a Supplementary File. Thy1-haSyn, alpha-synuclein overexpressing; WT, wild type; NES, normalized enrichment score.