TABLE 2.

Principal biological annotation and functional terms identified by gene set enrichment analysis of gene lists made up only of genes with a high fold change in expression (adjusted P > 0.01)

Comparison	No. of functional annotation clusters (enrichment score, ≥1.3)	No. of functional annotation terms (enrichment of ≥ 1.5 and P < 0.05)	Principal GO terms (cellular component, biological process, molecular function)	Fold enrichment	P value	Principal static KEGG pathway maps	Principal canonical pathways (MSigDB)
N vs D	27 (14.09)	97	GO:0009897, external side of plasma membrane	9.20	5.73 × 10−8	hsa04060, cytokine-cytokine receptor interaction; hsa04640, hematopoietic cell lineage; hsa04630, Jak-STAT signaling pathway; hsa04510, focal adhesion	VERHAAK_AML_NPM1_MUT_VS_WT_UP, ZHAN_MMPC_PC, BOQUEST_CD31PLUS_VS_CD31MINUS_UP
			GO:0006935, chemotaxis	5.68	1.30 × 10−7
			GO:0042330, taxis	5.68	1.30 × 10−7
			GO:0051240, positive regulation of multicellular organism process	4.83	2.20 × 10−4
			GO:0006954, inflammatory response	4.79	2.84 × 10−11
N vs DI	66 (46.62)	166	GO:0030595, leukocyte chemotaxis	6.12	3.61 × 10−6	hsa04060, cytokine-cytokine receptor interaction; hsa04650, natural killer cell-mediated cytotoxicity; hsa04640, hematopoietic cell lineage; hsa04514, cell adhesion molecules	CARIES_PULP_UP, ZHAN_MMPC_PC, LEE_TCELLS2_UP
			GO:0019965, interleukin binding	5.72	8.91 × 10−9
			GO:0004907, interleukin receptor activity	5.57	3.69 × 10−7
			GO:0002274, myeloid leukocyte activation	5.55	1.11 × 10−6
			GO:0050900, leukocyte migration	5.04	3.67 × 10−6
D vs DI	12 (15.43)	77	GO:0003823, antigen binding	27.17	2.44 × 10−21	hsa04060, cytokine-cytokine receptor interaction	CARIES_PULP_UP, EEA1PATHWAY, LEE_TCELLS2_UP
			GO:0050896, response to stimulus	7.16	7.23 × 10−8
			GO:0042330, taxis	7.16	7.23 × 10−8
			GO:0007626, locomotory behavior	5.39	1.89 × 10−8
			GO:0006955, immune response	5.16	1.1 × 10−18