TABLE 3.

Summary of the principal biological annotation and functional terms identified by gene set enrichment analysis of gene lists selected by membership of a coexpression (Biolayout Express) network

Coexpression cluster	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 identified or principal canonical pathway identified
MCL1 (tissue physiology and homeostasis)	23 (5.91)	36	GO:0007423, sensory organ development	4.04	1.78 × 10−5	hsa04310, Wnt signaling pathway; hsa04530, tight junction;
			GO:0009790, embryonic development	2.51	1.39 × 10−5	hsa04916, melanogenesis
			GO:0008134, transcription factor binding	2.2	1.99 × 10−5
MCL2 (cellular immune responses)	56 (23.78)	134	GO:0042101, T cell receptor complex	22.48	6.31 ×10−10	hsa04650, natural killer cell mediated cytotoxicity;
			GO:0015026, coreceptor activity	15.07	4.08 × 10−7	hsa04660, T cell receptor signaling pathway; hsa04612,
			GO:0030101, natural killer cell activation	13.96	9.69 × 10−8	antigen processing and presentation
MCL3 (innate immunity)	17 (16.95)	50	GO:0019955, cytokine binding	12.03	1.37 × 10−7	hsa04060, cytokine-cytokine receptor interaction
			GO:0006935, chemotaxis	10.78	1.99 × 10−11
			GO:0001816, cytokine production	9.96	9.96 × 10−8
MCL4 (cell cycle)	31 (50.7)	76	GO:0007051, spindle organization and biogenesis	73.46	5.85 × 10−17	hsa04110, cell cycle
			GO:0000070, mitotic sister chromatid segregation	43.08	8.72 × 10−13
			GO:0000775, chromosome, pericentric region	43.05	4.92 × 10−29
MCL5 (basic cell processes)	8 (2.97)	19	GO:0042578, phosphoric ester hydrolase activity	4.07	7.45 × 10−4	No enriched genes in KEGG pathways identified; gene
			GO:0009057, macromolecule catabolic process	3.16	0.004	content is typical of basic metabolic processes, zinc
			GO:0016788, hydrolase activity, acting on ester bonds	2.80	0.001	finger and metal ion binding and splice variants; MSigDB gene sets identified were TAKEDA_NUP8_HOXA9_16DN, PPARG pathway, and ALZHEIMERS_DISEASE_UP
MCL6 (keratinocyte cell biology)	8 (4.55)	57	GO:0001533, cornified envelope	53.36	2.33 × 10−9	hsa04120, ubiquitin-mediated proteolysis; hsa01430, cell
			GO:0030216, keratinocyte differentiation	26.87	2.53 × 10−6	communication
			GO:0031424, keratinization	20.62	9.36 × 10−5
MCL7 (plasma cells)	6 (13.84)	21	GO:0003823, antigen binding	36.20	1.03 × 10−14	No enriched genes in KEGG pathways identified; gene
			GO:0006955, immune response	7.73	4.46 × 10−11	content is typical of immunoglobulin response
			GO:0002376, immune system process	6.62	1.11 × 10−9	signature: MSigDB gene sets identified were TARTE_PC, HBX_NL_DN, and PENG_GLUTAMINE_UP
MCL8 (type II interferon response)	8 (7.8)	73	GO:0007260, tyrosine phosphorylation of STAT protein	50.1	2.5 × 10−6	hsa04060, cytokine-cytokine receptor interaction;
			GO:0007259, JAK-STAT cascade	24.64	4.77 × 10−5	hsa04630, Jak-STAT signaling pathway; hsa04620, Toll-
			GO:0018108, peptidyl-tyrosine phosphorylation	22.1	6.81 × 10−6	like receptor signaling pathway
MCL9 (B cells)	5 (3.63)	24	GO:0006959, humoral immune response	25.66	3.77 × 10−5	No enriched genes in KEGG pathways identified; gene
			GO:0009986, cell surface	11.59	8 × 10−4	content is typical of a immunoglobulin response
			GO:0002376, immune system process	4.82	6.87 × 10−7	signature; MSigDB gene sets identified were KLEIN_PEL_DN, KUMAR_HOXA_DIFF, and ZHAN_MMPC_PC
MCL10 (type I interferon response)	8 (8.87)	63	GO:0009615, response to virus	39.61	5.02 × 10−15	No enriched genes in KEGG pathways identified; gene
			GO:0051707, response to other organism	19.51	1.31 × 10−11	content is typical of type I (INTERFERONα/β)
			GO:0009607, response to biotic stimulus	12.53	1.49 × 10−9	signaling response signature; MSigDB gene sets identified were TAKEDA_NUP8_HOXA9_16DN, BECKER_IFN_INDUCIBLE_SUBSET_1, and IFNA_HCMV_6HRS_UP