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. 2017 Jan;214(1):125–142. doi: 10.1084/jem.20160470

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© 2017 Connor et al.

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Figure 3. — Treatment with Nb is associated with profound transcriptional changes affecting multiple DC subsets. (A) PCA of genes expressed in CD103⁺, CD11b⁺, and TN DCs from mice treated with 600 Nb or PBS. (B) Volcano plots comparing gene expression in DC subsets from Nb or PBS-treated mice. FC, fold change. Bright red dots and dashed lines identify the genes scored as differentially expressed (Log₂FC > ±0.585 and adjusted P < 0.01). The number of up- or down-regulated genes for each comparison is shown in red. (C) Venn diagrams showing the relationship between the numbers of DEGs in different DC subsets after treatment with Nb versus PBS. The numbers of DEG in each subset is given in parentheses. The numbers of DEG unique to each subset or shared between populations are shown within the diagram; the numbers of genes that were up-regulated (up), down-regulated (down), or, for intersections, discordantly regulated (opposing) in different DC subsets compared to control are also shown. (D) Heat map showing a selection of top DEG in CD103⁺, CD11b⁺, and TN DCs. DC expression data are the mean of three replicate samples each from an independent experiment. P-values were calculated by DESeq2. *, P < 0.05; **, P < 0.01; ***, P < 0.001. #, expression below detection level.