Fig. 5 | Nature Communications

Fig. 5

From: Visual analysis of mass cytometry data by hierarchical stochastic neighbour embedding reveals rare cell types

Fig. 5

Analysis of the CD4+ T-cell compartment in inflammatory intestinal diseases. a Third HSNE level embedding of the CD4+ T cells (1.4 × 106 cells, selected in Fig. 3). Color and size of landmarks as described in Fig. 3. Right panel shows density features for the level 3 embedding. Blue encirclement indicates selection of landmarks representing CD28CD4+ T cells. b Embedding of the CD28CD4+ T cells (2.6 × 104 cells) at single-cell resolution. Bottom-left panel shows yellow and black dashed encirclements based on CD56 and CD56+ expression, respectively. Three bottom-right panels show cells colored according to: (left) from subjects with different disease status (CeD, Crohn, EATLII, RCDII, and controls), (middle) sampling status (annotated subset, discarded by ACCENSE and downsampled) and (right) tissue-of-origin (blood and intestine)

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