CTDquerier 1.0.0
The Comparative Toxicogenomics Database (CTDbase; http://ctdbase.org) is a public resource for toxicogenomic information manually curated from the peer-reviewed scientific literature, providing key information about the interactions of environmental chemicals with gene products and their effect on human disease [1][2].
CTDquerier
R packageCTDquerier
is an R package that allows to R users to download basic data from CTDbase about genes, chemicals and diseases. Once the user’s input is validated allows to query CTDbase to download the information of the given input from the other modules.
CTDbase offers a public web-based interface that includes basic and advanced query options to access data for sequences, references, and toxic agents, and a platform for analysis sequences.
In order to query CTDbase with a single term (aka. a gene, a chemical or a diseases) users can access to the web portal and use the keyword search.
Looking for the associations in CTDbase for the following set of then genes of interest implies to perform ten queries using this interface.
Follows the summary page of the results obtained after searching for the term XKR4:
The Batch Query tool (http://ctdbase.org/tools/batchQuery.go) is a provided by CTDbase and allows to download custom data associated with a set of chemicals, diseases and genes amount others.