Tip of the Week: Comparative Toxicogenomics Database (CTD), VennViewer
A couple years ago (yes, we’ve been doing tips for almost 3 years now!) I did a tip on CTD, introducing the database to new users. As I stated then, CTD:
…is an excellent database to find information on chemical-gene-disease interactions. It is a manually curated database of chemical-gene interactions, chemical-disease and gene-disease associations.
Well, the developers of CTD have been busy. CTD has had a few interface changes that will make it a bit simpler to navigate. The tip linked above still stands as a pretty good introduction to what CTD is and does, but they’ve also added a few very nice features for comparisons and more. You can read a lot more about it in their recent NAR database issue article. Reading that article, I found that there are a lots of new tools and features. Can’t do them all , so in today’s tip I present you with a very brief re-introduction to CTD and an introduction to one of the several new features at CTD, VennViewer. VennViewer creates a Venn Diagram “to compare associated data sets for up to three chemicals, diseases or genes.” A useful way to compare interactions.
Read the paper and explore the database to find more!
Davis AP, King BL, Mockus S, Murphy CG, Saraceni-Richards C, Rosenstein M, Wiegers T, & Mattingly CJ (2010). The Comparative Toxicogenomics Database: update 2011. Nucleic acids research PMID: 20864448