Fig. 8: Application of the TRIM algorithm to gene expression data.
a Shows the results of TRIM for the significant triples in the AML dataset. The scatter plot shows ΘΣ (y-axis) versus the CMI (x-axis). The colour of each point corresponds to the value of its entropic score S. Here we display only those triples with p-value 0.001 or less in the randomization null model and that have not been excluded by the Gaussian null model (for details about these triples see SI). Circles are triples whose links all appear in the minimum spanning tree, and squares indicate triples involving genes with biological relevance. b, c Display the conditional distributions for two example triples: both are identified by the TRIM algorithm with high significance, suggesting a meaningful biological association. Panel b shows the triple X = GATA1, Y = KLF1, Z = ETV1. According to the randomized surrogate null model, this triadic interaction has pΣ-value 0.001, ΘΣ = 4.75, Σ = 0.44, S = 0.64; panel c shows the results for the triple X = HOXB3, Y = MEIS1, Z = GLIS3 involving two biologically relevant genes. According to the randomized surrogate null model, it has ΘΣ = 3.98, pΣ = 0.001, Σ = 0.38, S = 0.60.
