Borziak Kirill, Parvanova Irena, Finkelstein Joseph
Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Stud Health Technol Inform. 2021 May 27;281:387-391. doi: 10.3233/SHTI210186.
Advancements in regenerative medicine have highlighted the need for increased standardization and sharing of stem cell products to help drive these innovative interventions toward public availability and to increase collaboration in the scientific community. Although numerous attempts and numerous databases have been made to store this data, there is still a lack of a platform that incorporates heterogeneous stem cell information into a harmonized project-based framework. The aim of the platform described in this study, ReMeDy, is to provide an intelligent informatics solution which integrates diverse stem cell product characteristics with study subject and omics information. In the resulting platform, heterogeneous data is validated using predefined ontologies and stored in a relational database. In this initial feasibility study, testing of the ReMeDy functionality was performed using published, publically-available induced pluripotent stem cell projects conducted in in vitro, preclinical and intervention evaluations. It demonstrated the robustness of ReMeDy for storing diverse iPSC data, by seamlessly harmonizing diverse common data elements, and the potential utility of this platform for driving knowledge generation from the aggregation of this shared data. Next steps include increasing the number of curated projects by developing a crowdsourcing framework for data upload and an automated pipeline for metadata abstraction. The database is publically accessible at https://remedy.mssm.edu/.
再生医学的进展凸显了对提高干细胞产品标准化和共享程度的需求，以推动这些创新干预措施走向公众可及，并加强科学界的合作。尽管已经进行了大量尝试并建立了众多数据库来存储这些数据，但仍缺乏一个将异质性干细胞信息整合到基于项目的统一框架中的平台。本研究中描述的平台ReMeDy的目标是提供一种智能信息学解决方案，将不同的干细胞产品特征与研究对象和组学信息整合在一起。在生成的平台中，异质性数据使用预定义的本体进行验证，并存储在关系数据库中。在这项初步可行性研究中，使用已发表的、公开可用的诱导多能干细胞项目进行体外、临床前和干预评估，对ReMeDy功能进行了测试。它通过无缝协调各种常见数据元素，证明了ReMeDy存储各种诱导多能干细胞数据的稳健性，以及该平台通过汇总这些共享数据推动知识生成的潜在效用。下一步包括通过开发用于数据上传的众包框架和用于元数据提取的自动化管道来增加经过策划的项目数量。该数据库可通过https://remedy.mssm.edu/公开访问。
