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. 2020 Feb 21;11:288. doi: 10.3389/fimmu.2020.00288

Figure 1.

Figure 1

Delineation of major cell lineages within PBMC. (A) A HSNE-embedding at the overview level showing a collective analysis of PBMC from healthy controls (HC, n = 15) and patients with new-onset (N-T1D, n = 7) and long-standing (L-T1D, n = 9) type 1 diabetes, Hashimoto's thyroiditis (HT, n = 8), Graves' disease (GD, n = 7) and autoimmune Addison's disease (AD, n = 8). Eight major cell lineages (left) were defined based on the ArcSinh5-transformed expression of conventional lineage markers (right). (B) Proportions (%) of the different lineages in live CD45+ cells. Numbers and colors below the bar graph represent individuals (001-054) and groups, respectively. (C) Example of hierarchal data exploration applied on all cell lineages. The CD8+ T cell lineage from the overview level was selected and embedded at more detailed levels. Memory CD8+ T cells (black circle) were selected at level 3 based on CD45RO expression. At level 4, unsupervised Gaussian mean-shift (GMS) clustering used the local probability density of HSNE-embedded cells (density map) to identify phenotypically distinct clusters (color partitions). ILC, innate lymphoid cell; HSNE, hierarchical stochastic neighbor embedding.