Extended Data Fig. 7: Neutrophil heterogeneity in human PLC.
From: Liver tumour immune microenvironment subtypes and neutrophil heterogeneity
a, H&E and IHC plots showing the neutrophil frequencies in HCC and ICC patients. Scale bar, 20 μm. Boxplot to the right is the quantitative result. Student’s t-test, two sided. (HCC, n = 5 cases, ICC, n = 8 cases, n denotes biologically independent samples.) In the boxplot, centre line shows median, box limits indicate upper and lower quartiles, and whiskers extend 1.5 times the interquartile range, while data beyond the end of the whiskers are outlying points that are plotted individually. b, Dot heatmap showing the row-scaled expression of marker genes for neutrophil clusters. c, UMAP plots showing the expression of typical marker genes for neutrophil subsets. Exp, normalized expression. d, Distribution of neutrophil clusters by patient. e, Monocle trajectories of neutrophils coloured by tissues (left), cluster identities (middle) and CytoTRACE scores (right). Each dot represents a single cell. Cell orders are inferred based on the expression of the most variable genes across neutrophil clusters. f, Heatmap showing similarity scores of peripheral blood neutrophil clusters from Xie et al. and lung cancer neutrophil clusters from Zillionis et al. compared with liver cancer neutrophil clusters inferred by singleR. g, OS and PFS of patients stratified by the proportion of all neutrophils and neutrophil clusters (Neu_09/10/11) in TIME-ISM. Log-rank test. h, Average expression of classic neutrophil scores and TAN-specific gene scores in neutrophil clusters. i, Gene ontology analysis showing the enrichment of specific pathways in neutrophil clusters. Benjamini–Hochberg-adjusted hypergeometric test.
