Fig. 4.

Complement complex C1q expression is a hallmark of CD68⁺CD168⁺macrophages and can be used to generate the SIA signature from bulk RNA sequencing of tumours. (a) Heatmap of scaled gene expression values for the 29 genes with highest fold difference between CD68⁺CD163⁻, CD68⁺CD163⁺ and CD68⁻CD163⁺ macrophage classes in colorectal cancers⁴³ (See also Supplementary Figs. S6 and S7, Supplementary Tables S5–S7). (b and c) Expression level distributions of the macrophage associated genes C1QA-C and APOE in lung cancer⁴⁵ (B) and uveal melanoma⁴⁴ (See also Supplementary Figs. S8 and S9). (d) Gene expression level distributions of C1QA-C and APOE in three subsets of macrophages in 15 non-diseased organs (See also Supplementary Table S8). (e) Overall survival stratified by dichotomized ratio between the bulk RNA expression levels of CD8A and C1QA in seven tumour types using gene expression data from the KM plotter database (See also Supplementary Fig. S10).