Skip to main content
Fig. 5 | Genome Biology

Fig. 5

From: TraSig: inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data

Fig. 5

Functional validation of TraSig ligand-receptor signaling predictions. a Strategy for localized signaling effect of CXCL12. CXCL12 (red stain) overlaid with CD34 (green stain, on insets only) shown here with the yellow boxes indicating loci of high relative CXCL12 expression, and blue boxes indicating low relative CXCL12 expression. The same strategy was used for VEGF loci selection (see the “Methods” section). b Percent vessel area and junction density measured at CXCL12 and c VEGF low vs high loci from day 14 liver organoid cultures using AngioTool. n = 4 loci for high CXCL12/VEGF expression and n = 4 loci for low CXCL12/VEGF on one coverslip per staining combination. d Example of AngioTool evaluation of CD34-stained liver organoid cultures from the vehicle control (top) and Axitinib (bottom) conditions. e Percent vessel area, junction density, and average vessel length vascular metrics determined by AngioTool analysis results of CD34-stained liver organoid cultures with different inhibitor conditions. n = 2 biological replicates with 4 sampled areas per coverslip. For b and c, unpaired two-tailed t test was used, * p<0.05, **** p<0.0001. For e, ANOVA with Tukey post-comparison test was used, **** p<0.0001. Data are represented as mean ± SE for b, c, and e

Back to article page