心脏病动物模型比较转录组学数据库的构建

Establishment of a comparative transcriptomics database of heart disease animal models

目的整合心脏病动物模型与心脏病患者基因表达谱,系统表征基因表达差异,筛选差异基因,分析基因表达异同,为动物实验与比较医学研究提供依据。方法从公共数据库下载心脏病动物模型与患者的基因芯片、转录组数据。按照物种、病种、病程等对数据进行整理、标准化处理、批次校正,转换为数据库可用格式,搭建在线数据库。结果心脏病动物模型比较转录组学数据库实现基因、功能通路全局检索查询,分析基因在不同物种(人与小鼠)、不同病种、不同组织、不同病程的表达。交互式展示样品表达谱,可视化基因表达量,进行比较分析。在线差异基因挖掘,功能通路富集鉴定,探索差异、易感基因参与调控的生物过程,解释易感机制,提供在线数据分析。结论本文建立了心脏病动物模型比较转录组学数据库,为心脏病基因水平研究提供数据资源与在线分析工具。

ObjectiveTo integrate the gene expression profiles of heart disease animal models and patients,systematically characterize the differences in gene expression,screen differentially expressed genes,analyze the similarities and differences of gene expression,and provide a basis for animal experiments and comparative medicine research.MethodsMicroarray and transcriptome data of heart disease animal models and patients were downloaded from a public database.Data were sorted by species and disease type and stage,standardization and removal of batch effects were performed,data were converted in the available format for the database,and an online database was built.ResultsThe comparative transcriptomics database of heart disease animal models realized global searching and queries of genes and functional pathways,and analysis of gene expression in humans and mice,diseases,tissues,and stages.It also interactively displayed sample expression profiles,visualized gene expression,and facilitated comparative analysis.The database allowed online differential gene mining,enrichment and identification of functional pathways,exploration of the biological processes of susceptibility genes involved in regulation,explanation of the susceptibility mechanism,and online data analysis.ConclusionsA comparative transcriptomic database of heart disease animal models was established to provide data resources and online analysis tools to study heart disease.