Extended Data Fig. 4: TP53 variants analysis in U2OS cells. | Nature Biotechnology

Extended Data Fig. 4: TP53 variants analysis in U2OS cells.

From: Direct measurement of engineered cancer mutations and their transcriptional phenotypes in single cells

Extended Data Fig. 4

(a) UMAP plot showing single-cell gene expression profile per each genetic variant. U2OS cells are treated with Nutlin-3a after introduction of variants using full sgRNA library. (b) Proportion of UMAP cluster from cells with each genetic variant. Hierarchical clustering was performed based on the proportion to categorize genetic variants. Reds indicate wild type-like variants. (c) UMAP embedding of cells colored by p53 pathway gene scores. (d) Violin plot showing the p53 pathway gene score per cells with each genetic variant. *: P < 0.03, n.s: Not significant; two-sided t-test. P = 8.0e-08, 2.0e-11, 6.5e-65, 6.8e-16, 0.0e + 00, 4.9e-12, 1.6e-259, 4.2e-65, 1.6e-20, 4.2e-04, 0.0e + 00, 5.5e-195, 9.2e-300, 3.8e-311, 4.9e-63, 1.8e-15, 1.0e-19, 2.0e-224, 1.6e-10, 1.6e-58, 0.0e + 00, 0.0e + 00, 9.6e-05, 7.4e-09, 3.4e-13, 5.9e-173, 1.4e-183, 1.0e-52, 6.4e-191, 5.3e-120, 5.8e-14, 1.3e-06, 9.6e-80, 1.5e-13, 1.3e-52, 1.4e-03, 1.2e-08, 5.6e-13, 2.3e-07, 3.9e-05, 5.6e-10, 1.9e-28, 7.8e-21, 1.4e-05, 7.7e-07, 5.8e-05, 2.2e-05, 4.3e-12, 1.1e-02, 4.9e-04, 3.5e-05, 1.5e-01, 3.5e-03, 2.7e-02, 1.1e-11, 3.0e-03, 1.0e-01, 3.6e-01, 4.8e-02, 4.0e-02, 5.0e-01, 7.2e-01. (e) Heatmap showing average GSVA enrichment score of selected Hallmark pathways per each category of genetic variant.

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