Bioinformatics analysis of aberrantly methylated-differentially expressed genes and pathways in hepatocellular carcinoma

doi:10.3748/wjg.v24.i24.2605

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World Journal of Gastroenterology

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1007-9327

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Baishideng Publishing Group Inc, 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA

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World J Gastroenterol. Jun 28, 2018; 24(24): 2605-2616
Published online Jun 28, 2018. doi: 10.3748/wjg.v24.i24.2605

Table 3 Hub genes for hypermethylated, lowly expressed genes ranked in cytoHubba

Catelogy	Rank methods in cytoHubba
Catelogy	MNC	Degree	EPC	Closeness	Radiality	Stress
Gene symbol top 10	*PTGS2*	ADCY5	*PTGS2*	*PIK3CD*	*PIK3CD*	*PTGS2*
	*PIK3CD*	*MMP2*	*PIK3CD*	*PTGS2*	*PTGS2*	*PIK3CD*
	ADCY5	*PTGS2*	*MMP2*	*MMP2*	*MMP2*	*MMP2*
	ADCY1	*PIK3CD*	ADCY5	*ESR1*	*ESR1*	PRKG1
	*CXCL1*	PRKG1	ADCY1	PRKG1	TLR2	*ESR1*
	*ESR1*	ADCY1	*ESR1*	TLR2	SERPINE1	FYN
	*MMP2*	*ESR1*	*CXCL1*	FYN	PRKG1	RAC2
	FYN	FYN	TLR2	*CXCL1*	SNAI1	SERPINE1
	TLR2	*CXCL1*	CALCA	SERPINE1	CRP	*CXCL1*
	SERPINE1	TLR2	PTGER2	ADCY5	*CXCL1*	ADCY5

Bold gene symbols were the overlap hub genes in top 10 by six ranked methods respectively in cytoHubba. MNC: Maximum neighborhood component; Degree: Node connect degree; EPC: Edge percolated component.

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Citation: Sang L, Wang XM, Xu DY, Zhao WJ. Bioinformatics analysis of aberrantly methylated-differentially expressed genes and pathways in hepatocellular carcinoma. World J Gastroenterol 2018; 24(24): 2605-2616
URL: https://www.wjgnet.com/1007-9327/full/v24/i24/2605.htm
DOI: https://dx.doi.org/10.3748/wjg.v24.i24.2605

Sang L, Wang XM, Xu DY, Zhao WJ. Bioinformatics analysis of aberrantly methylated-differentially expressed genes and pathways in hepatocellular carcinoma. World J Gastroenterol 2018; 24(24): 2605-2616 [PMID: 29962817 DOI: 10.3748/wjg.v24.i24.2605]

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