Abstract: A microarray database (MDB) system for providing a computer-based environment for storing, managing and interconnecting comprehensive information associated with various aspects of microarray research for a plurality of users, including microarray design and production, sample production, hybridization, data recordation, data retrieval, data analysis, and data presentation. As such, the MDB system gives users the ability to relate information describing array production, experimentation, and analysis, including all the experiment parameters, hybridization results, and analysis results. The MDB system includes a server and database accessible by users via a user system, and provides users with a user interface to input, store, manage, retrieve, process, analyze, display and/or output data relating to microarray experiments.