Organization of dysregulated genes into common pathways. (A) One-hundred-and-sixteen dysregulated genes (sets A-D) were analyzed in PathwayArchitect (Stratagene) to determine a relevance interaction network. Thirty-one genes with a high confidence index of interactions were included in the pathway layout graph. Connecting lines between gene symbols indicate interactions; different types of interactions are denoted by symbols on the lines. Green square indicates regulation; purple square, binding; blue square, expression; orange circle, protein modification; red diamond, metabolism; green circle, promoter binding; yellow triangle, transport; + in gray circle, positive effect; and − in gray circle, negative effect. (B) GO annotations of the murine APL dysregulome genes. Red indicates genes with increased expression in APL cells with respect to enriched promyelocytes; green, genes with decreased expression. (C) Two grouping variable category graphs show raw probe set signal intensity values for the common pathway genes shown in panel A (and also Gapdh) for days 0 to 7 of the myeloid differentiation assay, and for 6 APL samples.