Skip to main content
. 2022 Feb 18;10(4):437–452. doi: 10.1158/2326-6066.CIR-20-0973

Figure 3.

Figure 3. Cbl-b KO CD8+ T cells display distinct transcriptomic profiles. RNA was extracted from unstimulated, anti-CD3, and anti-CD3/CD28-stimulated Cbl-b KO and WT CD8+ T cells (n = 3) and sequenced. A, PCA of Cbl-b–sufficient and –deficient CD8+ T cells in the different stimulatory conditions. B and C, Venn diagrams representing either the total number of DEGs (B) or number of upregulated genes (C) between Cbl-b KO and WT CD8+ T cells of each condition (P < 0.05 and log2 fold change > 1). D, A heatmap representing DEGs of each group. Values were calculated using individual gene's Z-normalized log2 score (RNA-seq read count + 1). E, GSEA network clustering for the identification of highly upregulated pathways in Cbl-b–deficient CD8+ T cells of each condition. F, Enrichment plot depicting gene-expression signatures from Gene Ontology Cytokine Activities comparing anti-CD3–stimulated KO vs. WT CD8+ T cells. The barcode plot represents the position of the genes in the gene set; red and blue colors represent positive and negative Pearson correlation with Cbl-b deficiency, respectively. G, Volcano plots highlighting DEGs between Cbl-b KO and WT CD8+ T cells stimulated with anti-CD3 or anti-CD3/CD28. H, Pairwise analysis of DEGs between stimulated and unstimulated Cbl-b KO and WT CD8+ T cells. Blue and orange points indicate upregulated and downregulated genes in response to TCR stimulation, respectively.

Cbl-b KO CD8+ T cells display distinct transcriptomic profiles. RNA was extracted from unstimulated, anti-CD3, and anti-CD3/CD28-stimulated Cbl-b KO and WT CD8+ T cells (n = 3) and sequenced. A, PCA of Cbl-b–sufficient and –deficient CD8+ T cells in the different stimulatory conditions. B and C, Venn diagrams representing either the total number of DEGs (B) or number of upregulated genes (C) between Cbl-b KO and WT CD8+ T cells of each condition (P < 0.05 and log2 fold change > 1). D, A heatmap representing DEGs of each group. Values were calculated using individual gene's Z-normalized log2 score (RNA-seq read count + 1). E, GSEA network clustering for the identification of highly upregulated pathways in Cbl-b–deficient CD8+ T cells of each condition. F, Enrichment plot depicting gene-expression signatures from Gene Ontology Cytokine Activities comparing anti-CD3–stimulated KO vs. WT CD8+ T cells. The barcode plot represents the position of the genes in the gene set; red and blue colors represent positive and negative Pearson correlation with Cbl-b deficiency, respectively. G, Volcano plots highlighting DEGs between Cbl-b KO and WT CD8+ T cells stimulated with anti-CD3 or anti-CD3/CD28. H, Pairwise analysis of DEGs between stimulated and unstimulated Cbl-b KO and WT CD8+ T cells. Blue and orange points indicate upregulated and downregulated genes in response to TCR stimulation, respectively.