Fig. 2

The immune cells infiltration and biological function landscape of the TIME phenotypes. a The consensus score matrix of all samples when k = 3. A higher consensus score between two samples indicates they are more likely to be grouped into the same cluster in different iterations. b The cumulative distribution functions of consensus matrix for each k (indicated by colors). c The proportion of ambiguous clustering (PAC) score, a low value of PAC implies a flat middle segment, allowing conjecture of the optimal k (k = 3) by the lowest PAC. d two-dimensional principle component plot by infiltration profile of 24 immune cell subsets. Each point represents a single sample, with different colors indicating the TIME phenotypes. e The infiltration abundance of 24 immune cell subsets evaluated by ssGSEA algorithm for three TIME phenotypes in the GEO cohort. f The differences of 24 immune cell subsets infiltration among three TIME phenotypes in the GEO cohort. g The activation states of Hallmark pathways of distinct TIME phenotypes in the GEO cohort. h Spearman correlation of specific Hallmark pathways in TIME-2 with MKI67 (*P < 0.05). i Spearman correlation between specific Hallmark pathways in three TIME phenotypes and immune score assessed by ESTIMATE algorithm. j The activation states of KEGG pathways of distinct TIME phenotypes in the GEO cohort. For the boxplot, the asterisks represented the statistical p value (*P < 0.05, **P < 0.01, *** P < 0.001, **** P < 0.0001)