Extension of clinical data structured into the ImmPort model and cross-study data exploration and visualization user interface

项目摘要/摘要 共享生物医学研究数据有助于独立验证研究结果、设计未来临床 试验和重复使用数据来检验新的假说。共享数据的一个平台是免疫学数据库和 分析门户(ImmPort)，这是一个公共仓库，提供对临床和机械数据的开放访问 目前有341项免疫学和临床研究。除了有价值的高吞吐量数据元素外，ImmPort 提供对来自临床研究的个人级别数据的访问。ImmPort上的许多临床研究都有 与它们相关联的大量数据，这些数据没有被注释和解析到结构化的ImmPort MySQL中 数据库模型，但以各种不同格式的单独文件提供。在这种形式中，数据不是 随时可用于数据挖掘或二次分析。我们将优先处理来自临床的非结构化数据 研究整合到结构化MySQL ImmPort模型中，以便于更好地访问和重复使用。我们进一步 将协调数据库中尚未建立首选术语但已使用的词汇 这对二次分析具有很高的兴趣。目前，ImmPort中跨研究的可用数据挖掘 对于没有信息学经验并因此依赖于关键字搜索的用户来说，这是一个挑战 ImmPort的网页。为了满足这一迫切需求，我们将开发一种交互式交叉研究数据探索 ImmPort模型中数据的可视化用户界面，包括创建交叉研究的功能 出口。新构建到ImmPort模型中的数据以及用户界面将集成到 ImmPort及其网页。几种疾病(如过敏、器官移植)的治疗依赖于 诱导免疫耐受。在Immport，几项研究集中在不同的疾病上，但有潜在的 关于免疫耐受的话题。我们将对共享的个人级别的临床和 这些研究的机制数据有助于确定临床发展的潜在普遍驱动因素 免疫耐受。这一分析将被用来开发交互式用户界面的逐步教程。

Project Summary/Abstract Sharing of biomedical research data facilitates independent validation of findings, the design of future clinical trials and the reuse of data to test new hypothesis. One platform to share data is the Immunology Database and Analysis Portal (ImmPort), a public warehouse providing open access to clinical and mechanistic data from currently 341 immunological and clinical studies. In addition to valuable high-throughput data elements, ImmPort provides access to individual-level data from clinical studies. Many of these clinical studies in ImmPort have an abundance of data associated with them that is not annotated and parsed into the structured ImmPort MySQL database model but made available as separate files in various different formats. In this form the data are not readily available for data mining or secondary analysis. We will prioritize the unstructured data from clinical studies for integration into the structured MySQL ImmPort model to facilitate better access and reuse. We further will harmonize the used vocabularies in the database for which a preferred terminology is not yet established but which is of high interest for secondary analyses. Currently, the mining of available data across studies in ImmPort is a challenge for users who have no experience in informatics and, therefore, rely on the keyword search on ImmPort’s web page. To address this critical need, we will develop an interactive cross-study data exploration and visualization user interface for data in the ImmPort model including the functionality to create cross-study exports. The data newly structure into the ImmPort model as well as the user interface will be integrated into ImmPort and its web page. The treatments of several diseases (e.g. allergies, organ transplantation) rely on the induction of immune tolerance. In ImmPort serval studies focus on different diseases but with the underlying topic of immune tolerance. We will perform a secondary analysis of the shared individual-level clinical and mechanistic data of these studies towards the identification of potential universal drivers of developing clinical immune tolerance. This analysis will be used to develop a step-by-step tutorial for the interactive user interface.