A Framework to Predict the Molecular Classification and Prognosis of Breast Cancer Patients and Characterize the Landscape of Immune Cell Infiltration

Figure 1

The immune-cell infiltration (ICI) landscape in BRCA immune microenvironment. (a) PCA of integration of expression profiles of TCGA-BRCA and Yau cohorts by Combat algorism to eliminate batch effects of different cohorts. (b) Heatmap with unsupervised clustering analysis of tumor-infiltrating immune cells in TCGA-BRCA and Yau cohorts. (c) Hotspot plot for correlation matrix of immune cells in three ICI clusters, including their immune scores and stromal scores. Red indicates positive correlation, and blue indicates negative correlation. (d) Box plot for abundance of each immune infiltrating cells in the three ICI clusters. The asterisks represent the statistical value (Kruskal-Wallis test, ). (e) Survival analysis for three ICI clusters of 1721 breast cancer patients from TCGA-BRCA and Yau cohorts using Kaplan-Meier curves. The log-rank test showed that . Violin plots of the differential expression of (f) PD1 and (g) PD-L1 (only for TCGA-BRCA cohort) among the three ICI clusters. The statistical differences among ICI clusters were compared by the Kruskal-Wallis test ().

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