(http://jakarta.apache.org/commons/math) are used for statistical analysis. The fuzzy similarity measure and related functions are implemented locally. The user front end of ToppGene Suite is a web application written in JAVA. The application server is Sun GlassFish Enterprise Server v2.1 running on OpenSUSE 10.3 Linux. Speed is a key consideration in the design choices of the ToppGene Suite front end. When the web server is started, most of the data is loaded from a relational database and kept in memory.
