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. Author manuscript; available in PMC: 2020 Sep 1.
Published in final edited form as: Cancer Res. 2020 Jan 16;80(5):1078–1087. doi: 10.1158/0008-5472.CAN-19-2039

Figure 2. Expression profiles of 64 immune-related genes.

Figure 2.

(A) Hierarchical clustering of (log-transformed) gene expression values across the 74 patients with known recurrence status from the MIP cohort, with relative levels of mRNA expression in each row and different patient samples in each column. Yellow indicates higher expression and blue indicates lower expression of each gene. Recurrence status of each patient is displayed in the top horizontal bar (recurrent patients are labeled in red; non-recurrent patients are labeled in grey). (B, top) Similarity of the expression profiles with CIBERSORT reference values was assessed to compare M1 (top left) and M2 (top right) macrophage signatures in non-recurrent and recurrent patients (p = 0.042 and 0.048, respectively). (B, bottom) Correlation plots for comparison of transcriptional similarity to CIBERSORT profiles (x-axis) with observed cellular compositions (y-axis). (C) Volcano plot of mRNA differential expression for all 64 genes. Genes to the right are higher in patients who did not die of melanoma. Statistical comparison in (A) performed using Mann-Whitney U test. Spearman correlation p-values in (B) evaluated using Fisher transformation. Differential expression in (C) evaluated using Benjamini-Hochberg (BH) correction.