Screening and validation of co-expressed genes in hepatocellular carcinoma(HCC)and atherosclerosis(AS)
Objective Identification of co-expressed genes in hepatocellular carcinoma(HCC)and athero-sclerosis(AS)by bioinformatics analysis.Methods The datasets of hepatocellular carcinoma(GSE84402,GSE25097)and atherosclerosis(GSE28829,GSE100927)were downloaded from the gene expression om-nibus(GEO)database.Co-expressed genes in GSE84402 and GSE28829 datasets were analyzed using the R software weighted gene co-expression networkanalysis(WGCNA)package,and it differentially expressed genes(differential gene express,DEGs)in GSE25097 and GSE100927 datasets were identified using the"Limma"package.Co-expressed genes in WGCNA and differential genes were identified using Venny and(gene ontology)GO enrichment analysis and(genome encyclopedia)KEGG analysis were per-formed using the"clusterProfiler"package.The co-expressed genes of WGCNA and differential genes were verified by qPCR,immunohistochemistry(IHC)and immunofluorescence(IF).Results A total of 227 co-expressed genes were identified by WGCNA analysis,and 5 co-expressed genes were identified by differential gene expression analysis.HIF1A,CASP8,LEF1,BCAT1 and LPL were identified as co-ex-pressed genes in HCC and AS,and KEGG analysis showed that the genes were mainly enriched in the cell cycle and MAPK signaling pathway.qPCR,IHC and IF were all shown to be in HCC and AS,and the ex-pression of co-expressed genes were higher than that in control tissues in the lesion tissues(P<0.05).Conclusion Bioinformatics screened 5 co-expressed genes of HIF1A,CASP8,LEF1,BCAT1 and LPL,which may be potential biological markers for HCC and AS,as well as the MAPK signaling pathway and cell cycle pathway plays key roles in the development of hepatocellular carcinoma and atherosclerosis.
hepatocellular carcinoma(HCC)atherosclerosis(AS)bioinformaticsgene expression omnibus
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