The whole slide image, antibody staining panel and multiplex IHC analysis workflow are presented in Fig.S6, while representative images of adjacent and HCC tissues were shown in Fig. 7A. We assigned the TIM4+CD68+ cells as resident macrophages, TIM4-CD68+ cells as infiltrating macrophages, ZO-1+CD31+ cells as vascular endothelial cells lining tight junction and ZO-1-CD31+ as leaky vascular endothelial cells. The gene discussed is TIMD4; the disease is hepatocellular carcinoma.