Seoul National University Biomedical Informatics (SNUBI), Seoul National University College of Medicine, Seoul, Republic of Korea.
J Biomed Inform. 2010 Jun;43(3):435-41. doi: 10.1016/j.jbi.2009.10.001. Epub 2009 Oct 14.
The importance of tissue microarrays (TMA) as clinical validation tools for cDNA microarray results is increasing, whereas researchers are still suffering from TMA data management issues. After we developed a comprehensive data model for TMA data storage, exchange and analysis, TMA-OM, we focused our attention on the development of a user-friendly exchange format with high expressivity in order to promote data communication of TMA results and TMA-OM supportive database applications. We developed TMA-TAB, a spreadsheet-based data format for TMA data submission to the TMA-OM supportive TMA database system. TMA-TAB was developed by simplifying, modifying and reorganizing classes, attributes and templates of TMA-OM into five entities: experiment, block, slide, core_in_block, and core_in_slide. Five tab-delimited formats (investigation design format, block description format, slide description format, core clinicohistopathological data format, and core result data format) were made, each representing the entities of experiment, block, slide, core_in_block, and core_in_slide. We implemented TMA-TAB import and export modules on Xperanto-TMA, a TMA-OM supportive database application, to facilitate data submission. Development and implementation of TMA-TAB and TMA-OM provide a strong infrastructure for powerful and user-friendly TMA data management.
组织芯片（TMA）作为 cDNA 微阵列结果的临床验证工具的重要性日益增加，而研究人员仍在苦苦寻找 TMA 数据管理问题的解决方案。在我们开发了一个用于 TMA 数据存储、交换和分析的综合数据模型 TMA-OM 之后，我们专注于开发一种用户友好的交换格式，以提高 TMA 结果和 TMA-OM 支持的数据库应用程序的数据通信能力。我们开发了 TMA-TAB，这是一种基于电子表格的数据格式，用于将 TMA 数据提交给 TMA-OM 支持的 TMA 数据库系统。TMA-TAB 通过简化、修改和重组 TMA-OM 的类、属性和模板，将其分为五个实体：实验、组织芯片块、切片、组织芯片块中的核心、组织芯片切片中的核心。创建了五个制表符分隔的格式（调查设计格式、组织芯片块描述格式、切片描述格式、组织芯片块中的核心临床病理数据格式和组织芯片切片中的核心结果数据格式），分别代表实验、组织芯片块、切片、组织芯片块中的核心和组织芯片切片中的核心实体。我们在 Xperanto-TMA 上实现了 TMA-TAB 的导入和导出模块，以方便数据提交。TMA-TAB 和 TMA-OM 的开发和实施为强大而用户友好的 TMA 数据管理提供了坚实的基础。
