Study on the identification of key genes for recurrent breast cancer during pregnancy based on transcriptome data analysis
Objective To identify the key genes associated with recurrent breast cancer in pregnancy by transcriptome data analysis.Methods The gene expression profiles of the GSE53031 gene set,which was as-sociated with pregnancy-associated breast cancer,were downloaded from the GEO database.Gene expression differences between recurrent and non-recurrent breast cancer patients in pregnancy were analyzed using the Wilcoxon test method in the"limma"software package.The R package"ClusterProfiler"was used to perform Gene Ontology(GO)functional annotation and Kyoto Encyclopedia of Genes and Genomes(KEGG)pathway enrichment analysis of these differentially expressed genes.The protein-protein interaction(PPI)network of differentially expressed genes was constructed using the STRING online database,and the"igraph"package was used to analyze the PPI network to identify key genes of breast cancer recurrence during pregnancy.Kap-lan-Meier(KM)method and univariate Cox regression analysis were used to evaluate the relationship between the key genes and recurrence-free survival of breast cancer patients during pregnancy.Results In the GSE63514 dataset,840 genes with significant differences in the expression of recurrent breast cancer samples in pregnancy were obtained,including 390 up-regulated genes and 450 down-regulated genes.GO functional annotation and KEGG pathway enrichment analysis showed that multiple differentially expressed genes were significant enriched in cell cycle regulation,mismatch repair,RNA degradation,DNA replication,breast canc-er,and p53 signaling pathway.PPI network analysis showed that the top 10 node genes in the network were PLK1,STAT3,SRC,UHRF1,UBE2C,UBE2T,TRIP13,RAD51,MYC,and TPX2,which were initially de-fined as the key genes for the recurrence of breast cancer in pregnancy.KM analysis and univariate Cox analy-sis showed that PLK1,UBE2C,UBE2T,TRIP13,RAD51 and TPX2 were risk genes for the recurrence of breast cancer in pregnancy[P＜0.05,hazard raiol(HR)＞1],while STAT3 was a protective gene for the re-currence of breast cancer in pregnancy(P＜0.05,HR＜1).UBE2C,TPX2,UBE2T,TRIP13,PLK1,RAD51,and STAT3 were identified as the key genes for recurrence of breast cancer in pregnancy.Conclusion Seven key genes(UBE2C,TPX2,UBE2T,TRIP13,PLK1,RAD51,and STAT3)of breast cancer recurrence in preg-nancy were identified,which provided candidate molecular for future research on the recurrence of breast canc-er in pregnancy.
Breast cancer in pregnancyRecurrenceBioinformaticsKey genesTranscriptome data analysis
万方数据
维普
