PATRIC the Mutli-use Pathogen Tool
Contributed by Marina Becker
With a heavy focus on food-borne pathogens, we are always on the lookout for new and better resources for data analysis and investigation. Recently, a web-based tool called PATRIC has intrigued us and warranted more exploration of what the site has to offer.
PATRIC, the Pathosystems Resource Integration Center, is a combination data base and analysis suite. Among the analysis resources, it offers genome assembly through an interactive GUI. The annotation GUI works similarly and annotates using RASTtk. In addition, the site also provides a relatively high volume protein family sorter and a comparative pathway tool for relative pathway and protein distribution information. Expression, proteome, and RNAseq data are also supported by the site with a tools available for each type of analysis.
PATRIC seems to be well integrated with other databases such as RefSeq and Genbank and allows for reasonably flexibility of search terms and types. Plus, it reports high level database statistics to give an idea about the database composition. For all varieties genome searching there are multiple levels of exploration available including sequence viewers, taxonomy data, lit searches, and more – many of which also have external links to related resources and data sources.
Overall, the site seems to be a well organized, all-encompassing resource which is free to use and easy to navigate. We have yet to evaluate how it compares to other analysis softwares and databases. For now though, it is an interesting new tool that is definitely worth investigating.
Here is the link to PATRIC: