Cellularity and monocytic contamination as quality control metrics after integration. Related to Fig. 7. (A) UMAP plot showing unbiased clustering of the CD4+ populations of 6 non-LTBI (6 donors) and 12 LTBI samples (7 donors) after quality control and integration, and prior to monocytic contamination removal. (B) Bar plot depicting cell numbers in each cluster per experimental condition. (C) UMAP plot showing joint density estimation for plot for CD11c and CD206 transcripts in the integrated dataset. (D) Dot plot showing the average expression and percentage of cells expressing CD11c and CD206 transcripts in each cluster. (E) Heatmap showing top five DEGs in the integrated dataset for each cluster prior to removal of low-quality clusters, e.g., clusters 16, 17, and 18.
Figure S3.

Cellularity and monocytic contamination as quality control metrics after integration. Related to Fig. 7. (A) UMAP plot showing unbiased clustering of the CD4+ populations of 6 non-LTBI (6 donors) and 12 LTBI samples (7 donors) after quality control and integration, and prior to monocytic contamination removal. (B) Bar plot depicting cell numbers in each cluster per experimental condition. (C) UMAP plot showing joint density estimation for plot for CD11c and CD206 transcripts in the integrated dataset. (D) Dot plot showing the average expression and percentage of cells expressing CD11c and CD206 transcripts in each cluster. (E) Heatmap showing top five DEGs in the integrated dataset for each cluster prior to removal of low-quality clusters, e.g., clusters 16, 17, and 18.

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