Veldhoven Antoine, de Lange Don, Smid Marcel, de Jager Victor, Kors Jan A, Jenster Guido
Department of Urology, Josephine Nefkens Institute, Erasmus MC, P.O. Box 1738, 3000 DR Rotterdam, The Netherlands.
BMC Bioinformatics. 2005 Jul 27;6:192. doi: 10.1186/1471-2105-6-192.
SRS (Sequence Retrieval System) has proven to be a valuable platform for storing, linking, and querying biological databases. Due to the availability of a broad range of different scientific databases in SRS, it has become a useful platform to incorporate and mine microarray data to facilitate the analyses of biological questions and non-hypothesis driven quests. Here we report various solutions and tools for integrating and mining annotated expression data in SRS.
We devised an Auto-Upload Tool by which microarray data can be automatically imported into SRS. The dataset can be linked to other databases and user access can be set. The linkage comprehensiveness of microarray platforms to other platforms and biological databases was examined in a network of scientific databases. The stored microarray data can also be made accessible to external programs for further processing. For example, we built an interface to a program called Venn Mapper, which collects its microarray data from SRS, processes the data by creating Venn diagrams, and saves the data for interpretation.
SRS is a useful database system to store, link and query various scientific datasets, including microarray data. The user-friendly Auto-Upload Tool makes SRS accessible to biologists for linking and mining user-owned databases.
序列检索系统（SRS）已被证明是一个用于存储、链接和查询生物数据库的重要平台。由于SRS中存在广泛的不同科学数据库，它已成为整合和挖掘微阵列数据以促进生物学问题分析和非假设驱动探索的有用平台。在此，我们报告了在SRS中整合和挖掘注释表达数据的各种解决方案和工具。
我们设计了一个自动上传工具，通过该工具可以将微阵列数据自动导入SRS。数据集可以链接到其他数据库，并可以设置用户访问权限。在一个科学数据库网络中检查了微阵列平台与其他平台和生物数据库的链接全面性。存储的微阵列数据也可以供外部程序进一步处理。例如，我们构建了一个与名为Venn Mapper的程序的接口，该程序从SRS收集其微阵列数据，通过创建维恩图处理数据，并保存数据以供解释。
SRS是一个用于存储、链接和查询各种科学数据集（包括微阵列数据）的有用数据库系统。用户友好的自动上传工具使生物学家能够访问SRS以链接和挖掘用户自己的数据库。
