aDC	activated dendritic cell
ADT	antibody-derived tag
APC	Antigen-presenting cell
CCA	Canonical correlation analysis
CITE-seq	Cellular Indexing of Transcriptomes and Epitopes by sequencing
cTEC	Cortical thymic epithelial cell
DC	Dendritic cell
DN	Double negative
DP	Double positive
Endo	Endothelial cell
Fibro	Fibroblast
GC	Germinal centre
H&E	Hematoxylin and eosin
TCR	T cell receptor
MHC	Major histocompatibility complex
Mono	Monocyte
mTEC	Medullary thymic epithelial cell
NK	Natural killer
NMF	Negative matrix factorisation
PBMC	Peripheral blood mononuclear cell
PCA	Principal component analysis
pDC	plasmacytoid dendritic cell
RBC	Red blood cell
SP	Single positive
TCR	T cell receptor
TEC(myo)	Myeloid thymic epithelial cell
TEC(neuro)	Neuroendocrine thymic epithelial cell
Treg	Regulatory T cell
Treg(diff)	Differentiating Treg
UMAP	Uniform manifold approximation and projection