Comparative Toxicogenomics Database: a knowledgebase and discovery tool for chemical-gene-disease networks.
The Comparative Toxicogenomics Database (CTD) is a curated database that promotes understanding about the effects of environmental chemicals on human health. Biocurators at CTD manually curate chemical-gene interactions, chemical-disease relationships and gene-disease relationships from the literature. This strategy allows data to be integrated to construct chemical-gene-disease networks. CTD is unique in numerous respects: curation focuses on environmental chemicals; interactions are manually curated; interactions are constructed using controlled vocabularies and hierarchies; additional gene attributes (such as Gene Ontology, taxonomy and KEGG pathways) are integrated; data can be viewed from the perspective of a chemical, gene or disease; results and batch queries can be downloaded and saved; and most importantly, CTD acts as both a knowledgebase (by reporting data) and a discovery tool (by generating novel inferences). Over 116,000 interactions between 3900 chemicals and 13,300 genes have been curated from 270 species, and 5900 gene-disease and 2500 chemical-disease direct relationships have been captured. By integrating these data, 350,000 gene-disease relationships and 77,000 chemical-disease relationships can be inferred. This wealth of chemical-gene-disease information yields testable hypotheses for understanding the effects of environmental chemicals on human health. CTD is freely available at http://ctd.mdibl.org.
Davis
Allan Peter
AP
Department of Bioinformatics, The Mount Desert Island Biological Laboratory, Salisbury Cove, ME 04672, USA.
Murphy
Cynthia G
CG
Saraceni-Richards
Cynthia A
CA
Rosenstein
Michael C
MC
Wiegers
Thomas C
TC
Mattingly
Carolyn J
CJ
D016208:Databases, Factual; D004194:Disease / Q000209:etiology* / Q000235:genetics; D004781:Environmental Exposure; D005796:Genes; D023281:Genomics; D015386:Hazardous Substances / Q000633:toxicity*; D006801:Humans; D008954:Models, Biological; D011506:Proteins / Q000187:drug effects / Q000235:genetics; D018511:Systems Integration; D043922:Toxicogenetics
D015386:Hazardous Substances; D011506:Proteins
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