Fig. 2

scRNA-seq profiling of multicellular ecosystem in MVI⁺ HCC and MVI⁻ HCC. A tSNE plot of cells from MVI⁺ HCC and cells from MVI⁻ HCC of 6 HCC patients with 9 clusters. B Proportion of 9 major cell types showing in bar plots in different samples. C tSNE showing the composition of macrophages. D Bar plots showing the percentage of each macrophage subtypes in scRNA-seq. E GSVA of 7 subclusters of macrophages. F The distribution of M1 and M2 polarization score in APOE⁺ macrophages. G The infiltration of APOE⁺ macrophages calculated by CIBERSORTX in MVI⁺ HCC and MVI⁻ HCC samples. H The Kaplan–Meier overall survival curves of HCC patients stratified by APOE⁺ macrophages infiltration. I Heatmap showing significantly different transcription factors genes in each macrophages subtype