Explore uncharted genomic territory using BLAST and a relational database

This website provides information about the DIGS tool - a software framework for implementing database-integrated genome-screening (DIGS).

DIGS is an approach for performing comparative genomic research in silico. It entails using sequence similarity search tools (e.g. BLAST) to recover sets of related nucleotide sequences from molecular sequence databases, then using a relational database (in combination with other analysis tools) to further investigate these data.

DIGS screenshot

Database integrated genome screening: the screenshot above shows querying of a DIGS project database via the SequelPro SQL client. The screening database shown here contains the results of a broad screen across mammalian species to identify rare 'endogenous lentivirus' sequences, such as 'rabbit endogenous lentivirus K' (RELIK). The panel on the left shows the screening database tables, reflecting the standard schema of a DIGS project database. The uppermost panel contains a database query, written in structured query language (SQL) - a standard language for storing, manipulating and retrieving data in databases. The main panel shows the subset of the database entries returned by the query. The SQL query shown here uses a 'WHERE clause' to filter results.


Robert J. Gifford (robjgiff@gmail.com)


This project is licensed under the GNU Affero General Public License v. 3.0.