Research Paper Volume 15, Issue 14 pp 7023—7037

Figure 3. Trajectory analysis of malignant ECs. (A, B) T-SNE plots of 7127 malignant ECs color-coded by origins and scissor clusters, respectively. (C) The pie chart showing the constitution of cells with various origins and the distribution of scissor subclusters. (D–F) The evolutionary phylogenetic trees of Scissor⁺ and Scissor⁻ cells annotated by pseudotime, cell origins and cell types, respectively. (G) A Venn diagram for summarizing gene variation between Scissor⁺ and Scissor⁻ cells. Blue represents Scissor⁻ cells and red represents Scissor⁺ cells. (H) The summary plot of the CNV profile of Scissor⁺ and Scissor⁻ cells. CNVs were converted to the chromosome arm level change and simplified as gain or loss. (I) Heatmap of 56 branch-dependent genes identified by BEAM. (J, K) The enriched hallmark pathways of two gene patterns by GSVA. ^*, means presenting in >90% of tumor cells. Abbreviations: ECs: epithelial cells; T-SNE: t-distributed stochastic neighbor embedding; CNV: copy number variation; BEAM: branch expression analysis modeling; GSVA: gene set variation analysis.