BRAF_p.W450L

BRAF_WT.c
Profile Prediction Class p-value
Cell Painting Impactful GOF 0.0003108781
L1000 Impactful GOF 5.74903e-05

These matrices show how similar the replicates of each pair are (reference gene self-correlation, reference-variant cross-correlation, and variant self-correlation). The correlation matrix colors represent the correlation values in the range from -0.2 to 1.0.

The box plots show the distribution of median values of the matrices’ rows (self-correlation) and columns (cross-correlation).

These matrices show how similar the replicates of each pair are (reference gene self-correlation, reference-variant cross-correlation, and variant self-correlation). The correlation matrix colors represent the correlation values in the range from -0.2 to 1.0.

The box plots show the distribution of median values of the matrices’ rows (self-correlation) and columns (cross-correlation).

UMAP projection — Phenotypes

The axes are the first two UMAP coordinates. Each point represents a single cell and the color corresponds to the treatment status (control cells in blue, reference gene cells in green, and variant cells in orange).

UMAP projection — Plates

Same UMAP projection as above, but each cell is colored according to the plate where the replicate comes from (legend numbers indicate plate numbers). Ideally, colors should be well integrated (random coloring patterns) indicating that the feature space is not dominated by technical artifacts.

Phenotypic overlap in the feature space

Each single cell in the sample visualized above was classified as having one of 7 potential phenotypes (according to the perturbation status of the nearest neighbors in the connectivity graph): 1) pure reference gene, 2) pure variant, 3) pure control, 4) shared reference-variant, 5) shared reference-control, 6) shared variant-control, 7) mixed of all. With these classifications, we quantify how much phenotypic similarities the populations of cells have in common, which is represented in the Venn diagram

Display the magnitude and directionality of predictions for all alleles in a gene set. The x-axis represents the negative log p-value of the impact test (the larger the more impactful), and the y-axis represents the log p-value of the directionality test polarized by the result of the strength test.