Identification of Candidate Genes Related to Inflammatory Bowel Disease Using Minimum Redundancy Maximum Relevance, Incremental Feature Selection, and the Shortest-Path Approach

Table 2

Twenty candidate genes obtained by SP approach.

GO term/KEGG pathway ID	Description	Gene symbol	Ensembl ID	Description	Betweenness	Permutation FDR	Maximum interaction score	Most related gene in the optimal gene set
hsa04660	T cell receptor signaling pathway	FOS	ENSP00000306245	FBJ murine osteosarcoma viral oncogene homolog	20	0.035	950	CD4
		PLCG1	ENSP00000244007	Phospholipase C, gamma 1	19	0.022	927	CD4
		LCK	ENSP00000337825	LCK protooncogene, Src family tyrosine kinase	21	0.02	999	CD4
		ZAP70	ENSP00000264972	Zeta-chain (TCR) associated protein kinase 70 kDa	16	0.016	999	CD247
GO: 0001775	Cell activation	YWHAZ	ENSP00000309503	Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta	19	0.009	962	MARK2
		TLR4	ENSP00000363089	Toll-like receptor 4	19	<0.001	970	HMGB1
		F2	ENSP00000308541	coagulation factor II (thrombin)	19	<0.001	953	PF4
GO: 0045449	Regulation of transcription	HCFC1	ENSP00000309555	Host cell factor C1	36	<0.001	997	OGT
		CNOT1	ENSP00000320949	CCR4-NOT transcription complex, subunit 1	6	0.004	998	CNOT8
		CNOT4	ENSP00000354673	CCR4-NOT transcription complex, subunit 4	6	0.008	987	CNOT8
		TRAK1	ENSP00000328998	Trafficking protein, kinesin binding 1	19	<0.001	946	OGT
		HDAC1	ENSP00000362649	Histone deacetylase 1	19	0.031	967	UBE2I
		BTG1	ENSP00000256015	B-cell translocation gene 1, anti-proliferative	13	0.006	981	CNOT8
		RUNX1	ENSP00000300305	Runt-related transcription factor 1	19	<0.001	927	SLC22A4
GO: 0031226	Intrinsic to plasma membrane	THBD	ENSP00000366307	Thrombomodulin	19	<0.001	985	PF4
		FASLG	ENSP00000356694	Fas ligand (TNF superfamily, member 6)	19	<0.001	985	EGR3
GO: 0042127	Regulation of cell proliferation	STK11	ENSP00000324856	Serine/threonine kinase 11	19	<0.001	986	MARK2
		S100A6	ENSP00000357708	S100 calcium binding protein A6	19	<0.001	987	ANXA11
		SERPINE1	ENSP00000223095	Serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1	18	0.034	933	PF4
		VEGFC	ENSP00000280193	Vascular endothelial growth factor C	19	<0.001	919	PF4