在人类微生物组研究中,调解分析最近被认为是一种实用而强大的分析工具,用于调查微生物组作为中介的因果作用,以解释观察到的医疗/环境暴露与人类疾病之间的关系。我们还注意到,在一项临床研究中,调查人员经常及时追踪疾病进展;因此,事件发生时间(例如,疾病的时间,治愈时间)响应,被称为生存反应,作为人类健康或疾病的替代变量很普遍。在本文中,我们介绍一个网络云计算平台,命名为具有生存反应的微生物组调解分析(MiMedSurv),用于在用户友好的网络环境中进行全面的微生物组中介分析和生存反应。MiMedSurv是我们之前的网络云计算平台的扩展,被命名为微生物组调解分析(MiMed),为了生存的反应。很好区分的两个主要特征如下。首先,MiMedSurv进行了一些基线探索性非中介生存分析,不涉及微生物组,调查药物治疗/环境暴露之间的生存反应差异。然后,MiMedSurv确定了微生物组在各个方面的中介作用:(i)作为使用生态指数的微生物生态系统(例如,α和β多样性指数)和(ii)作为不同层次的个体微生物类群(例如,门,类,订单,家庭,属,种)。为了说明它的使用,我们调查了肠道微生物组在抗生素治疗和1型糖尿病发病时间之间的中介作用.MiMedSurv在我们的网络服务器上免费提供(http://mimedsurv。Micloud.kr)。
In human microbiome studies, mediation analysis has recently been spotlighted as a practical and powerful analytic tool to survey the causal roles of the microbiome as a mediator to explain the observed relationships between a medical treatment/environmental exposure and a human disease. We also note that, in a clinical research, investigators often trace disease progression sequentially in time; as such, time-to-event (e.g., time-to-disease, time-to-cure) responses, known as survival responses, are prevalent as a surrogate variable for human health or disease. In this paper, we introduce a web cloud computing platform, named as microbiome mediation analysis with survival responses (MiMedSurv), for comprehensive microbiome mediation analysis with survival responses on user-friendly web environments. MiMedSurv is an extension of our prior web cloud computing platform, named as microbiome mediation analysis (MiMed), for survival responses. The two main features that are well-distinguished are as follows. First, MiMedSurv conducts some baseline exploratory non-mediational survival analysis, not involving microbiome, to survey the disparity in survival response between medical treatments/environmental exposures. Then, MiMedSurv identifies the mediating roles of the microbiome in various aspects: (i) as a microbial ecosystem using ecological indices (e.g., alpha and beta diversity indices) and (ii) as individual microbial taxa in various hierarchies (e.g., phyla, classes, orders, families, genera, species). To illustrate its use, we survey the mediating roles of the gut microbiome between antibiotic treatment and time-to-type 1 diabetes. MiMedSurv is freely available on our web server ( http://mimedsurv.micloud.kr ).