The PRODORIC project was initiated in the course of the foundation of the Bioinformatics Competence Center Braunschweig "Intergenomics" in 2001. It is one of six competence centers in Germany. The goal of the research and development of this competence center is to provide a range of bioinformatics tools that are suitable to model the interaction of genome-driven processes during the microbial infection of mammalian and plant organisms.
The project is funded by the German Bundesministerium für Bildung und Forschung (BMBF) and is managed by the Project Management Organisation Jülich (PTJ) and National Genome Research Network (NGFN).
The microbial part of the project (PRODORIC) is maintained at the Technical University of Braunschweig in the Institute of Microbiology.
PRODORIC is an acronym for PROcariotIC Database Of Gene-Regulation (the term "doric" refers to greek columns, that's why there is a the greek temple on the home page). This database is an integrated approach to provide information about molecular networks in prokaryotes with focus on pathogenic organisms. In detail this concerns:
In the long term it aims to be a resource to model protein-host interactions. Furthermore it will be a suitable platform to analyze high-throughput data from proteomis and transcriptomics experiments (systems biology).
- transcriptional regulation (transcription factors and their DNA binding sites
- signal transduction (two-component systems, phosphylation cascades)
- protein interactions (complex formation, oligomerization)
- biochemical pathways (chemical reactions)
- other regulation events (e.g. codon usage, etc. ...)
Currently PRODORIC mainly contains detailed information about operon and promoter structures including huge collections of transcription factor binding sites. If an appropriate number of regulatory binding sites is available, a position weight matrix (PWM) and a sequence logo is provided, which can be used to predict new binding sites (see tools). This data is collected manually by screening the original scientific literature.
More recently PRODORIC was extended to handle protein-protein interactions and signal-transduction cascades that commonly occur in form of two-component systems in prokaryotes. Furthermore PRODORIC contains metabolic network data imported from the KEGG database.
A number of database associated tools were developed for the prediction and visualization of data. For more details concerning our tools please visit the Tools Section of our website.