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MDADP:一个整合了数据库和预测工具的微生物-疾病关联的网络服务器。

MDADP: A Webserver Integrating Database and Prediction Tools for Microbe-Disease Associations.

出版信息

IEEE J Biomed Health Inform. 2022 Jul;26(7):3427-3434. doi: 10.1109/JBHI.2022.3156166. Epub 2022 Jul 1.

Abstract

More and more evidence has demonstrated that microbiota play important roles in the life processes of the human body. In recent years, various computational methods have been proposed for identifying potentially disease-associated microbes to save costs in traditional biological experiments. However, prediction performances of these methods are generally limited by outdated and incomplete datasets. And moreover, until now, there are limited studies that can provide visual predictive tools for inferring possible microbe-disease associations (MDAs) as well. Hence, in this manuscript, a novel webserver called MDADP will be proposed to identify latent MDAs, in which, a new MDA database together with interactive prediction tools for MDAs studies will be designed simultaneously. Especially, in the newly constructed MDA database, 2019 known MDAs between 58 diseases and 703 microbes have been manually collected first. And then, through adopting the average ranking method and the co-confidence method respectively, eight representative computational models have been integrated together to identify potential disease-related microbes. As a result, MDADP can provide not only interactive features for users to access and capture MDAs entities, but alsoeffective tools for users to identify candidate microbes for different diseases. To our knowledge, MDADP is the first online platform that incorporates a new MDA database with comprehensive MDA prediction tools. Therefore, we believe that it will be a valuable source of information for researches in microbiology and disease-related fields. MDADP can be accessed at http://mdadp.leelab2997.cn.

摘要

越来越多的证据表明,微生物在人体的生命过程中起着重要作用。近年来,已经提出了各种计算方法来识别潜在的与疾病相关的微生物,以节省传统生物学实验的成本。然而,这些方法的预测性能通常受到过时和不完整的数据集的限制。此外,到目前为止,还很少有研究能够提供可视化的预测工具来推断可能的微生物-疾病关联(MDAs)。因此,在本手稿中,我们将提出一个名为 MDADP 的新的网络服务器来识别潜在的 MDAs,其中将同时设计一个新的 MDA 数据库和用于 MDA 研究的交互式预测工具。特别是,在新构建的 MDA 数据库中,首先手动收集了 2019 年已知的 58 种疾病和 703 种微生物之间的 MDA。然后,分别采用平均排序法和共同置信度法,将 8 种有代表性的计算模型整合在一起,以识别潜在的与疾病相关的微生物。结果,MDADP 不仅可以为用户提供访问和捕捉 MDA 实体的交互功能,还可以为用户提供识别不同疾病候选微生物的有效工具。据我们所知,MDADP 是第一个将新的 MDA 数据库与全面的 MDA 预测工具相结合的在线平台。因此,我们相信它将成为微生物学和疾病相关领域研究的有价值的信息来源。MDADP 可在 http://mdadp.leelab2997.cn 访问。

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