Extended Data Fig. 7: Expression of canonical markers on CITE-seq data identifies and clusters major immune cell types. | Nature Medicine

Extended Data Fig. 7: Expression of canonical markers on CITE-seq data identifies and clusters major immune cell types.

From: Neurocognitive and hypokinetic movement disorder with features of parkinsonism after BCMA-targeting CAR-T cell therapy

Extended Data Fig. 7: Expression of canonical markers on CITE-seq data identifies and clusters major immune cell types.

(a) t-SNE plot representation of CITE-seq analysis of peripheral blood mononuclear cells before and after PMA/ionomycin stimulation. Clustering was determined by similarity network fusion (SNF) and Louvain clustering algorithm. Individual cells are colored by subject (healthy donor (HD), neurotoxicity patient (NEUROTOX) and 3 other patients on the same clinical trial without neurotoxicity (MM1, MM2, MM3). Highlighted are the major immune cell types (B cells, NK cells, CD8 + T cells, CD4 + T cells, CAR-T cells and monocytes). There is a small cluster of events that corresponds to multiplets or debris (centrally, not highlighted). (b) Expression level of canonical genes: CD8A, CD4, CD14, FCGR3A (CD16), CD19 and NCAM1 (CD56). In each case showing both mRNA (top) and ADT (antibody-derived tag, representation of protein level) (high = red, low = blue). Expression levels are normalized as described in the Methods.

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