Harvard Medical School, Boston, MA 02115, USA.
Massachusetts General Hospital, Boston, MA 02114, USA.
Bioinformatics. 2022 Oct 14;38(20):4833-4836. doi: 10.1093/bioinformatics/btac595.
The i2b2 platform is used at major academic health institutions and research consortia for querying for electronic health data. However, a major obstacle for wider utilization of the platform is the complexity of data loading that entails a steep curve of learning the platform's complex data schemas. To address this problem, we have developed the i2b2-etl package that simplifies the data loading process, which will facilitate wider deployment and utilization of the platform.
We have implemented i2b2-etl as a Python application that imports ontology and patient data using simplified input file schemas and provides inbuilt record number de-identification and data validation. We describe a real-world deployment of i2b2-etl for a population-management initiative at MassGeneral Brigham.
i2b2-etl is a free, open-source application implemented in Python available under the Mozilla 2 license. The application can be downloaded as compiled docker images. A live demo is available at https://i2b2clinical.org/demo-i2b2etl/ (username: demo, password: Etl@2021).
Supplementary data are available at Bioinformatics online.
i2b2 平台在主要的学术健康机构和研究联盟中用于查询电子健康数据。然而，该平台广泛应用的一个主要障碍是数据加载的复杂性，这需要学习平台复杂的数据模式，这是一个陡峭的学习曲线。为了解决这个问题，我们开发了 i2b2-etl 包，简化了数据加载过程，这将促进该平台的更广泛部署和利用。
我们已经将 i2b2-etl 实现为一个 Python 应用程序，该应用程序使用简化的输入文件模式导入本体和患者数据，并提供内置的记录编号去识别和数据验证。我们描述了在 MassGeneral Brigham 进行的一项人群管理计划中，i2b2-etl 的实际部署。
i2b2-etl 是一个免费的、开源的 Python 应用程序，在 Mozilla 2 许可证下可用。该应用程序可以作为编译的 Docker 映像下载。一个实时演示可在 https://i2b2clinical.org/demo-i2b2etl/ （用户名：demo，密码：Etl@2021）上获得。
补充数据可在生物信息学在线获得。
