| BSE | Bovine spongiform encephalopathy |
| cDC | Conventional dendritic cell |
| CNS | Central nervous system |
| CSF1/R | Colony-stimulating factor 1/receptor |
| FAE | Follicle-associated epithelium |
| FDC | Follicular dendritic cell |
| GALT | Gut-associated lymphoid tissue |
| GSS | Gerstmann–Sträussler–Scheinker disease |
| IC | Intracerebral |
| IFN | Interferon |
| IFNGR1 | Interferon gamma receptor 1 |
| IL | Interleukin |
| IP | Intraperitoneal |
| LPS | Lipopolysaccharide |
| MFGE8 | Milk fat globule epidermal growth factor 8 |
| MHC | Major histocompatibility complex |
| MNP | Mononuclear phagocyte |
| PrPC | Cellular PrP isoform |
| PrPSc | Prion disease-specific PrP isoform |
| sCJD | Sporadic Creutzfeldt–Jakob disease |
| SED | Subepithelial dome |
| SFB | Segmented filamentous bacteria |
| SLO | Secondary lymphoid organ |
| TGF | Transforming growth factor |
| TNF | Tumour necrosis factor |
| UPR | Unfolded protein response |
| vCJD | Variant Creutzfeldt–Jakob disease |
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