Bioinformatics Analysis Of Differential Genes In Endometriosis

Objective A preliminary screening for differentially expressed genes in ectopic endometrium and eutopic endometrium in patients with endometriosis provided clues for follow-up experimental validation studies.Methods(1)In the GEO database(Gene Expression Omnibus),the m RNA chip was searched with the keyword "endometriosis".Establishment of inclusion criteria: derived from human tissue;ectopic endometrium in patients with endometriosis and its eutopic pairing chip;and chips derived from whole genome m RNA expression.(2)GCBI(Gene-Cloud of Biotechnology Information)was used to perform data processing on the selected microarrays(P value ?0.01,Q value ? 0.01,difference multiple?2),and the intersection of differentially expressed genes in two sets of chips was screened.(3)Application of DAVID(The Database for Annotation,Visualization and Integrated Discovery)to assign GO functional annotation and KEGG pathway analysis to differential genes.(4)Screening out differential genes with GO terms and being in the KEGG Pathway.(5)The use of the String database to build a protein-protein interaction network encoded by differential genes,and to screen for highly relevant nodal proteins(point score ?0.4).Results(1)There are two m RNA chips that meet the inclusion criteria,namely GSE7305 and GSE11691.(2)Data mining was performed on GSE7305 and GSE11691,and 59 differential genes were screened out.Among them,there were 43 differentially expressed genes with low expression on both chips.There were 10 differentially expressed genes with high expression and 6 with different expression trends.Six genes with different expression trends were excluded and the remaining 53 differential genes were selected for subsequent functional analysis.(3)GO(Gene Ontology)analysis and KEGG(Kyoto Encyclopedia of Genes and Genomes)analysis of differential genes:There are 8 biological processes,which mainly focus on cell adhesion,immune response,classical complement activation pathway,and negative chemotaxis.There are 6 molecular functions,mainly focusing on protein binding,calcium binding,extracellular matrix structure components,MHC-II receptor activity,3',5'-cyclic nucleotide phosphodiesterase activity and so on.A total of 20 cytological components,mainly involving the serous membrane,lateral serosal,extracellular area,cell surface,extracellular matrix,Golgi membrane,lysosomal membrane,MHC-II protein complex and so on..Analysis of the KEGG pathway revealed that 35 pathways are involved in three major categories: signaling pathways(MAPK signaling pathway,PI3K-Akt signaling pathway),cell adhesion(cell adhesion molecules,local adhesion),pathways of immune-related diseases(Such as Ig A intestinal immunity,rheumatoid arthritis,systemic lupus erythematosus,allograft rejection,graft-versus-host disease,autoimmune thyroid disease,antigen processing and presentation,etc.)(4)A total of 9 differential genes with GO function and KEGG pathway were screened out,namely AOC3,C3,PDE1 A,PDE2A,PDGFA,SLIT2,A2 M,HLA-DRB1,and HLA-DPA1.(5)Protein interaction network results showed that 49 nodes,14 protein interactions,high scores of partial proteins: PTPRC,HLA-DQA1,HLA-DQB1,PTPRC,MCAM,CXCL12,C3,CLU,A2 M,TGFBR2 SYNPO,BGN,PDE2 A,etc.,in which PTPRC,HLA-DQA1,HLA-DQB1 were significantly associated.Conclusions(1)In this paper,bioinformatics methods were used to analyze the endometriosis m RNA chip in public data GEO.The differentially expressed genes in the ectopic endometrium of endometriosis were screened.A total of nine differential genes,AOC3 and C3,were finally screened out.PDE1 A,PDE2A,PDGFA,SLIT2,A2 M,HLA-DRB1,HLA-DPA1.(2)The functional analysis of differential genes was performed and found:ACO3 is mainly involved in cell adhesion and phenylalanine metabolism.PDGFA mainly involves MAPK signaling pathway,PI3K-Akt signaling pathway,interaction between cytokine receptors,and local cell adhesion.C3 and A2 M participate in the cascade of complement activation and coagulation activation.PDE1A,PDE2 A is mainly involved in 3',5'-cyclic nucleotide phosphodiesterase activity,purine metabolism.HLA-DRB1 and HLA-DPA1 mainly involve immune responses and participate in immune-related diseases.