Extended Data Fig. 4: Clustering and dimensionality reduction identify information.
From: Single-cell image-based screens identify host regulators of Ebola virus infection dynamics
(a) Adjusted Rand score for Leiden clustering at different resolutions for 50 folds of 90% of the input data. Box plots here and in (d) indicate median (middle line), 25th, 75th percentile (box) and 1.5 times the IQR (whiskers) as well as outliers (single points). (b) Additional single-cell images of select genetic knockouts from the genome-wide optical pooled screen. (c) Correlation between the PHATE potential distance from the clustering using the fine-tuned model and the adjusted FDR p-value from the Kotliar study, noting genes whose expression significantly increased or decreased along with infection. (d) Correlation between the PHATE potential distance from the supervised clustering and the number of mass spectrometry studies that identified the genes as an interactor with an Ebola virus protein. (e) Venn diagram showing overlap between top optical pooled screen hits, genes that were present in at least one mass spectrometry study, and differentially expressed genes from Kotliar et al’s single-cell RNA sequencing study. (f) Correlation between the PHATE potential distance from the supervised clustering and the 95th percentile z-score for each gene in other virus genetic screens.
