Reimer Niklas, Ulrich Hannes, Busch Hauke, Kock-Schoppenhauer Ann-Kristin, Ingenerf Josef
Institute of Medical Informatics, University of Lübeck, Germany.
IT Center for Clinical Research (ITCR-L), University of Lübeck, Germany.
Stud Health Technol Inform. 2021 May 24;278:86-93. doi: 10.3233/SHTI210055.
Precision medicine is an emerging and important field for health care. Molecular tumor boards use a combination of clinical and molecular data, such as somatic tumor mutations to decide on personalized therapies for patients who have run out of standard treatment options. Personalized treatment decisions require clinical data from the hospital information system and mutation data to be accessible in a structured way. Here we introduce an open data platform to meet these requirements. We use the openEHR standard to create an expert-curated data model that is stored in a vendor-neutral format. Clinical and molecular patient data is integrated into cBioPortal, a warehousing solution for cancer genomic studies that is extended for use in clinical routine for molecular tumor boards. For data integration, we developed openEHR Mapper, a tool that allows to (i) process input data, (ii) communicate with the openEHR repository, and (iii) export the data to cBioPortal. We benchmarked the mapper performance using XML and JSON as serialization format and added caching capabilities as well as multi-threading to the openEHR Mapper.
精准医学是医疗保健领域中一个新兴且重要的领域。分子肿瘤委员会结合临床和分子数据，如体细胞肿瘤突变，为那些已用尽标准治疗方案的患者确定个性化治疗方案。个性化治疗决策要求医院信息系统中的临床数据和突变数据能够以结构化方式获取。在此，我们引入一个开放数据平台来满足这些要求。我们使用openEHR标准创建一个由专家策划的数据模型，该模型以供应商中立的格式存储。临床和分子患者数据被整合到cBioPortal中，cBioPortal是一个用于癌症基因组研究的仓储解决方案，已扩展用于分子肿瘤委员会的临床常规工作。为了进行数据整合，我们开发了openEHR Mapper，这是一个工具，它允许（i）处理输入数据，（ii）与openEHR存储库通信，以及（iii）将数据导出到cBioPortal。我们使用XML和JSON作为序列化格式对映射器性能进行了基准测试，并为openEHR Mapper添加了缓存功能以及多线程功能。
