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Figure 1 | Genome Biology

Figure 1

From: Characterization of the immunophenotypes and antigenomes of colorectal cancers reveals distinct tumor escape mechanisms and novel targets for immunotherapy

Figure 1

Molecular phenotypes and immunophenotypes of CRC tumors. (A) Subpopulations of TILs enriched in the tumors and spin chart for the TCGA cohort . The numbers for the subpopulations represent percentages of tumors with enriched immune cell subpopulations. T-cell compartment includes all T-cell subpopulations. Tem, effector memory T cell; Tcm, central memory T cell; Act, activated; aDC, activated dendritic cell; pDC, plasmacytoid dendritic cell; iDC, immature dendritic cell; Mac, macrophages; Eos, eosinophils; Neu, neutrophils; NK, natural killer cells. The spin chart gives an overview of the cohort (n = 460) with each line representing one patient. The molecular phenotypes are shown in the inner circle. The subpopulations of TILs significantly (q-value ≤0.1) enriched in individual patients based on single sample gene set enrichment analysis (ssGSEA) are shown in the outer circles. Within each molecular phenotype, the patients are sorted according to the enriched immune cell types: the immune cell types are ordered by their odds ratio for the corresponding molecular phenotype in a descending order. CIMP-H, CIMP-high; CIMP-L, CIMP-low; CIMP-Neg, CIMP-negative. (B) Heat map of log-transformed odds ratios of the TIL subpopulations for three different molecular phenotypes and different combinations thereof (for example, hypermutated, MSI-H, and CIMP-L). (C) Kaplan-Meier (KM) curves for overall survival for patients using the relative number of immune cells (Tem CD8, Tem CD4, Treg, NK, aDC and MDSC). Shown are groups with high relative numbers of cells (hi, red) versus the low relative number of cells (lo, blue) at the optimum value cutoff. CI, confidence interval; HR, hazards ratio.

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