Extended Data Fig. 2: ClueGO networks of biologic processes deregulated at post-transplantation relapse.

a, Network representing the mutual relationship between gene ontology, KEGG and BioCarta terms related to the 110-gene signature identified from the pairwise comparison of AML blasts collected at disease diagnosis and at relapse after allo-HCT from discovery cohort patients (n = 9), as evidenced by the ClueGO package of Cytoscape. Dots and colored circles represent genes and biological terms, respectively. The amplitude of the circles represents the adjusted P value (calculated by a two-sided Fisher’s exact test, Bonferroni step-down correction) of each term enrichment. The thickness of each line correlating genes with biological terms represents the strength of interaction as defined by the kappa score. The enriched terms are clustered by function according to their gene content similarity: ‘positive regulation of T cell activation’ (in dark green), ‘peptide antigen assembly with MHC class II protein complex’ (in red), ‘negative regulation of protein import in the nucleus’ (in blue) and ‘regulation of protein tyrosine kinase activity’ (in light blue). b, The gray-scale image represents the same network of panel a, with the direction of deregulation of genes: red represents upregulation at relapse, green represents downregulation.