宿主对疫苗的反应是复杂的,但研究很重要。为了便于学习,我们开发了一种称为疫苗诱导基因表达分析工具(VIGET)的工具,目的是为用户提供一个交互式在线工具,以有效和稳健地分析ImmPort/GEO数据库中收集的宿主免疫应答基因表达数据。VIGET允许用户选择疫苗,选择ImmPort研究,通过选择混杂变量和两组不同接种时间的样本来建立分析模型,然后使用Reactome的Web服务进行差异表达分析以选择用于途径富集分析和功能相互作用网络构建的基因。VIGET为用户提供了比较两种分析结果的功能,促进不同人口群体之间的比较反应分析。VIGET使用疫苗本体论(VO)对各种类型的疫苗进行分类,例如活疫苗或灭活流感疫苗,黄热病疫苗,等。为了展示VIGET的效用,我们对黄热病疫苗的免疫反应进行了纵向分析,发现了免疫系统中一个有趣的复杂活性反应模式,证明VIGET是一个有价值的门户网站,支持使用Reactome途径和ImmPort数据进行有效的疫苗应答研究。
Host responses to vaccines are complex but important to investigate. To facilitate the
study, we have developed a tool called Vaccine Induced Gene Expression Analysis Tool (VIGET), with the aim to provide an interactive online tool for users to efficiently and robustly analyze the host immune response gene expression data collected in the ImmPort/GEO databases. VIGET allows users to select vaccines, choose ImmPort studies, set up analysis models by choosing confounding variables and two groups of samples having different vaccination times, and then perform differential expression analysis to select genes for pathway enrichment analysis and functional interaction network construction using the
Reactome\'s web services. VIGET provides features for users to compare results from two analyses, facilitating comparative response analysis across different demographic groups. VIGET uses the Vaccine Ontology (VO) to classify various types of vaccines such as live or inactivated flu vaccines, yellow fever vaccines, etc. To showcase the utilities of VIGET, we conducted a longitudinal analysis of immune responses to yellow fever vaccines and found an intriguing complex activity response pattern of pathways in the immune system annotated in
Reactome, demonstrating that VIGET is a valuable web portal that supports effective vaccine response studies using
Reactome pathways and ImmPort data.