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MySQL - The world's most popular open source database
Freeplane - Freeplane is a powerful and free software for building mind maps.
PostgreSQL - PostgreSQL is a powerful, open source object-relational database system.
SuperNotecard - Introducing SuperNotecard. SuperNotecard is an online writing tool that features virtual notecards to help arrange facts or scenes, track details, organize paragraphs, and clarify your composition process.
SQLite - SQLite Home Page
vym - VYM (View Your Mind) is a tool to generate and manipulate maps which show your thoughts.