Selecting data

Before you can see any view, you will need to load some data. The online application is connected directly to the RegPrecise database.

The fundamental organising principle of RegPrecise is the regulon, which represents a set of co-regulated genes in the genome of a single bacterial species. A regulon consists of a transcription factor together with the collection of genes regulated by the transcription factor and the sites at which the transcription factor binds to the DNA strand upstream of each regulated operon. Regulons from multiple organisms are grouped to form regulogs. A regulog is an equivalence class of regulons in which all transcription factors are orthologous. RegPrecise provides further levels of organisation by gathering regulogs into collections based on taxonomic grouping, transcription factor family, RNA family, pathway and effectors. In addition, RegPrecise organises regulons by the organism from which they originate.

TRNDiff provides major navigational paths through RegPrecise:

  1. RegPrecise Genomes panel is intended for locating regulons contained in specific organisms, and branching out from there to to obtain corresponding regulons (if any) in the other organisms in the collection.

  2. RegPrecise Regulogs panel allows browsing the various regulog collections to locate regulons.

You can also work with your own local data using these two navigational paths.