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Seeking for endometrial carcinoma-related genes and their bioinformatics analysis
Objective:Screening and excavating genes and biological information related to endometrial carcinoma (EC),to provide novel means for clinical diagnosis and treatment.Methods:The gene chip data of EC was obtained from the Gene Expression Omnibus (GEO) database,we integrated gene discrepantly expressive gene analysis,enrichment of genic function and pathway analysis,protein-protein interaction (PPI) network and literature mining to predict genes and pathways of EC.Results:Functional enrichment analysis identified 976 differential expression genes were participated in cell cycle regulation,proliferation,biosynthesis,protein phosphorylation and fission biological process,etc.We found eight significantly up-regulated pathways in the microarray datasets,including the MAPK signaling pathway and mTOR pathway,and six down-regulated pathways,including the P53 signaling pathway and cell cycle.Gene protein related interaction network analysis was further performed,and we found twelve distinct genes,including the PCNA and CCND1,these genes were located in key position of EC related network,which may be related to the pathogenesis and progression of EC.Furthermore,there was a high correlation between PCNA and CCND1 with EC by consulting the related literature and data,however,the functional mechanism was uncleared.Conclusion:The pathogenesis and progression of EC may involve in several different pathways and genes,the genes PCNA,CCND1 and MAPK signaling pathway may be valuable.
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Bioinformatics analysis of exosome proteome derived from hepatic carcinoma HepG2 cells
Objective:The aim of this study was to analyze the exosome proteome derived from hepatic carcinoma HepG2 cells and normal hepatocytes HL-7702,and look for the key factors in carcinogenesis of hepatocellular carcinoma (HCC).Methods:HepG2 and HL-7702 cells were cultured,and exosome samples were obtained from the culture supernatant and verified.LTQ-Orbitrap Elite mass spectrometry was applied to analyze and identify the exosome proteome derived from the hepatic carcinoma cells and normal liver cells,which was for seeking hepatic carcinoma cells specifically expressed proteins.Furthermore,gene ontology (GO),protein-protein interaction (PPI) network,and pathway enrichment were constructed to analyze hepatic carcinoma cells specifically expressed proteins.Results:The exosomes of HL-7702 expressed 3,366 proteins,and the exosomes of HepG2 expressed 2,874 proteins,of which 1,224 were expressed specifically in HepG2 exosomes.102 target proteins were selected and going on bioinformatics analysis under the condition that the unique peptide was ≥1 and PSMs ≥10.GO analysis results showed that the target expression protein of HepG2 was concentrated on metabolism,proliferation,and localization adhesion function.76 target proteins were chosen and formed a PPI network;combining with pathway analysis,ACTN1,FN1,RAC1 and GSN were found to be involved in important signaling pathways of HCC.The 26 target proteins which not in PPI network were analyzed pathway involved in,respectively.AKR1C2 and C5 were found to be involved in differently important signaling pathways of HCC.Conclusion:Exosomes proteomics provides the sources of specific protein derived from hepatic carcinoma cell;when it combines with bioinformatics analysis,they are able to reveal the important molecules that are related to carcinogenesis of HCC and provide new ideas for investigation of HCC biomarkers.
