Fig. 3: Cellular landscape of the LNs subtypes. | Nature Communications

Fig. 3: Cellular landscape of the LNs subtypes.

From: Lymph nodes molecular subtypes unravel lymph nodes heterogeneity and clinical implications in colorectal cancer

Fig. 3

A Dot plot showing cell types highly expressed DEGs by the expression of up-regulated and down-regulated DEGs across cell types (n = 173). Adjustment p value was obtained using GSEA with default setting. B Bar plots illustrating the differences in cell proportions among LNs subtypes from BJ cohort (n = 173), HB cohort (n = 162) and TY cohort (n = 227). C Box plots illustrating the differences in cell proportions among LNs subtypes, using LN scRNA-seq data as a reference based on CIBERSORTx, from the BJ cohort (n = 50, 35, 31, 32, 11, and 14), HB cohort (n = 81, 20, 37, 9, and 15), and TY cohort (n = 35, 120, 28, 12, and 32). Each data point represents an individual LN (biological replicates). Box plots represent the median (center line), 25th and 75th percentiles (bounds of the box), and minimum and maximum values (whiskers). The p value was obtained using Wilcox test. The IHC staining (D) and quantification results (E) reveal differential expression of CD4, CD8 and CD20 between NLN_C1 (n = 32) and NLN_C4 (n = 11). Each data point represents an individual LN (biological replicates). Data are presented as mean values ± SD. The p value was calculated using a two-sided Student’s t test. Scale bars indicate 625 μm and 1.25 mm respectively. Source data are provided as a Source Data file. Meta metastatic, Non-meta non-metastatic, LNs lymph nodes, DEGs differentially expressed genes, GSEA gene set enrichment analysis, IHC immunohistochemistry, SD standard deviation, AOD average optical density.

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