基于生信分析对基底细胞癌核心基因的筛选及其相关通路的研究

Screening of core genes and related pathways based on credit analysis

目的通过生信分析筛选基底细胞癌的核心基因,探索疾病治疗的新靶点。方法在基因表达综合数据库(Gene expression omnibus database,GEO)中下载基底细胞癌相关基因芯片,筛选出GSE6520、GSE7553、GSE103439三个数据集。应用GEO2R分析软件筛选基底细胞癌和癌旁组织样本间的差异表达基因。利用DAVID进行GO功能及KEGG通路可视化富集分析。应用STRING分析基因的蛋白交互作用。Cytoscape(Version 3.7.2)软件构建蛋白质-蛋白质互作网络,MCODE插件对蛋白互作网络进行枢纽基因的分析与筛选。MCODE插件筛选出核心基因。结果共筛选出参与基底细胞癌发生和进展的102个相同趋势的差异表达基因,筛选并验证出6个核心基因,包括ANXA1、CALD1、CASQ2、CHST2、FZD2、FZD7。这些核心基因主要参与了生物过程、细胞成分、分子功能的调节;生物过程包括对有机物质的反应,细胞对化学刺激的反应,细胞通信的调整,信号调节等;细胞成分分析提示差异基因主要集中在细胞外基质、胞质、细胞外囊泡、外泌体中;分子功能分析提示阴离子结合、碳水化合物衍生结合、相同蛋白结合、酶结合等。KEGG分析差异表达基因主要集中在WNT信号通路、黑色素生成通路等多个方面。结论基于生物信息学分析初步筛选得到了基底细胞癌中的差异基因,了解其分子机制及在基底细胞癌发病机制和发生、进展过程中的作用。为进一步研究基底细胞癌的诊断及治疗提供方向。

Objective To screen the core genes of basal cell carcinoma through biocredit analysis and explore new targets for disease treatment.Methods The basal cell carcinoma-related gene chip was downloaded from the Gene expression omnibus database(GEO),and GSE6520,GSE7553 and GSE103439 were selected.GEO2R analysis software was applied to select differentially expressed genes between samples from basal cell carcinoma and adjacent tissues.GO function and KEGG pathway visual enrichment analysis were performed using DAVID.STRING was applied to analyze the protein interactions of the genes.The Cytoscape(Version 3.7.2)software were used toconstruct the protein-protein interaction network,and the MCODE plugin were used toanalyze and screen the protein interaction network of hub genes and core genes.Results A total of 102 differentially expressed genes with the same trend involved in BCC initiation and progression were selected,and six core genes were screened and identified,including ANXA1,CALD1,CASQ2,CHST2,FZD2,and FZD7.These core genes are mainly involved in the regulation of biological processes,cellular components,and molecular functions.Biological processes include responses to organic substances,cell response to chemical stimuli,adjustment of cell communication,and signal regulation.Cellular composition analysis indicated that differential genes are mainly concentrated in extracellular matrix,cytoplasm,extracellular vesicles,and exosomes.Molecular function analysis suggestedthat anion binding,carbohydrate derivative binding,same protein binding,enzyme binding,and so on.KEGG analysis of differentially expressed genes mainly focused on many aspects such as WNT signaling pathway and melanogenesis pathway.Conclusion Based on the bioinformatics analysis,the differential genes in BCC were initiallyselected to understand the molecular mechanism and its role in the pathogenesis,occurrence and progression of BCC.It provides a direction for further studying on the diagnosis and treatment of BCC.