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Nucleic Acids Res. 2017 Jan 4;45(D1):D972-D978. doi: 10.1093/nar/gkw838. Epub 2016 Sep 19.

The Comparative Toxicogenomics Database: update 2017.

Author information

1
Department of Biological Sciences, North Carolina State University, Raleigh, NC 27695, USA apdavis3@ncsu.edu.
2
Department of Biological Sciences, North Carolina State University, Raleigh, NC 27695, USA.
3
Department of Bioinformatics, The Mount Desert Island Biological Laboratory, Salisbury Cove, ME 04672, USA.
4
Center for Human Health and the Environment, North Carolina State University, Raleigh, NC 27695, USA.

Abstract

The Comparative Toxicogenomics Database (CTD; http://ctdbase.org/) provides information about interactions between chemicals and gene products, and their relationships to diseases. Core CTD content (chemical-gene, chemical-disease and gene-disease interactions manually curated from the literature) are integrated with each other as well as with select external datasets to generate expanded networks and predict novel associations. Today, core CTD includes more than 30.5 million toxicogenomic connections relating chemicals/drugs, genes/proteins, diseases, taxa, Gene Ontology (GO) annotations, pathways, and gene interaction modules. In this update, we report a 33% increase in our core data content since 2015, describe our new exposure module (that harmonizes exposure science information with core toxicogenomic data) and introduce a novel dataset of GO-disease inferences (that identify common molecular underpinnings for seemingly unrelated pathologies). These advancements centralize and contextualize real-world chemical exposures with molecular pathways to help scientists generate testable hypotheses in an effort to understand the etiology and mechanisms underlying environmentally influenced diseases.

PMID:
27651457
PMCID:
PMC5210612
DOI:
10.1093/nar/gkw838
[Indexed for MEDLINE]
Free PMC Article

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