Fig. 2

Single-cell annotation and pseudotime analysis. (A) The uniform manifold approximation and projection (UMAP) plot showing the distribution of the 11 samples after removing the batch effects. (B) Bubble plot of marker gene expression for cells in lung adenocarcinoma tissue (LAT) and malignant pleural effusion (MPE) samples. (C, D) UMAP visualization of single-cell annotation results for LAT and MPE samples (left), volcano plots of differentially expressed genes for each cell cluster (middle), and percentage of each cell cluster in each sample (right). Up_Highly: log2FC > 0 and adjusted p value < 0.01; Up_Lowly: log2FC > 0 and adjusted p value > = 0.01, adjusted p value < 0.05; Down_Lowly: log2FC < = 0 and adjusted p value > = 0.01, adjusted p value < 0.05; Down_Highly: log2FC < = 0 and adjusted p value < 0.01. (E, F) Trajectory analysis of myeloid cells in LAT and MPE samples