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Fig. 3 | Genome Medicine

Fig. 3

From: Multi-region sequencing with spatial information enables accurate heterogeneity estimation and risk stratification in liver cancer

Fig. 3

Characterization of low-ITH and high-ITH tumors. A Spearman correlation between normalized and raw diversity scores. B Spearman correlation between normalized diversity scores and physical diversity. C The proportion of differentially expressed genes (DEGs) between low-ITH and high-ITH tumors. D Differential biological processes between two classes based on KEGG enrichment analysis. E Clustering of enrichment results based on KEGG pathway metadata. F Difference of normalized V(D)J counts between two classes. Higher normalized V(D)J counts indicate more infiltration of tumor-infiltrating lymphocyte (TIL). G Difference of abundance of T follicular helper cells and M1 macrophages between two classes. H Difference of activity of IFN-γ response between two classes. Pathway activity was determined via calculating the mean value of expression of genes included in IFN-γ response pathway. I Heatmap showing the difference of VIPER-inferred protein activity of immune checkpoint genes between two classes. Statistical significance of difference was determined using Wilcoxon rank-sum test

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Genome Medicine

ISSN: 1756-994X

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