Garlic is a Web-based personal bookmark manager which does not require a separate SQL server. It provides full text indexing and bookmark categorization. Data is stored in Berkeley DB format, and can be exported to XML. Garlic can build a reading list from RSS feeds, thanks to a companion application called Pesto.
Pybliographer is a tool for managing bibliographic databases. It supports several bibliography formats (BibTeX, Refer, Medline, ISI, Ovid) and can be used for searching, editing, reformatting, etc, through its nice graphical interface for GNOME. Due to its nature, it can be extended to many uses (generating HTML pages according to bibliographic searches, etc). It is provided with sample scripts.