Chemical Gene Interaction Types

$179 / year

This dataset contains the terms of the vocabulary used in the Comparative Toxicogenomics Database (CTD) to describe the type of relationship between the chemical and the gene, these terms define different effects of the chemical over the gene or the products of a gene at a molecular level. The vocabulary used in the CTD is organized in a hierarchical manner, for which many of the terms have a parent term and at the same time could have a descendant term.

Complexity

The Comparative Toxicogenomics Database (CTD) purpose is to provide a tool to generate new hypotheses on the mechanism of chemicals in the development of diseases by collecting curated data reported in the scientific literature on chemicals, genes and diseases and making inferences on the relationships of these three elements.

The CTD datasets can be used to create a tool for input of queries to obtain inferred relationships between genes, chemicals and diseases and the significance of the inferences. When a query is run, the terms on this dataset are used in the result to describe the action of a chemical over a respective gene.

Date Created

2004-01-20

Last Modified

2016-08-12

Version

2016-08-12

Update Frequency

Monthly

Temporal Coverage

N/A

Spatial Coverage

N/A

Source

John Snow Labs; Comparative Toxicogenomics Database;

Source License URL

Source License Requirements

Publicly available and free for research application but citation is required. Permission asked for commercial uses

Source Citation

Davis AP, Grondin CJ, Johnson RJ, Sciaky D, King BL, McMorran R, Wiegers J, Wiegers TC, Mattingly CJ. The Comparative Toxicogenomics Database update 2017. Nucleic Acids Res. 2016 Sep 19;[Epub ahead of print]

Keywords

Toxicogenomics, CTD Vocabulary, Gene Parent Terms, Gene Descendant Terms, Mechanism of Disease Development, Relationship Between Genes, Comparative Toxicogenomics Database, Relationships Between Chemicals and Diseases, Chemical and Disease Inferences, Chemical Disease Hypotheses

Other Titles

Type of Relationship Between Genes and Chemicals, Biological Process Involved in Associations Genes Chemicals, Nomenclature of Biological Process, Chemical Gene Interaction Types Phenotypic Ratio, Chemical Gene Interaction Types Epistasis, Chemical Gene Interaction Types Phenotypic Ratio

NameDescriptionTypeConstraints
Interaction_Type_NameName of interaction (reaction) between the chemical and the gene (or between the chemical and proteins). These interactions are from published references in vertebrates and invertebrates.stringrequired : 1
CodeAbbreviation of the interaction.stringrequired : 1
DescriptionDefinition of the interaction.stringrequired : 1
Parent_CodeParent interaction. Code of the reaction from which the listed interaction originates.string-
Interaction Type NameCodeDescriptionParent Code
abundanceabuThe abundance of a chemical (if chemical synthesis is not known).
activityactAn elemental function of a molecule.
bindingbA molecular interaction.
cotreatmentwInvolving the use of two or more chemicals simultaneously.
expressionexpThe expression of a gene product.
foldingfolThe bending and positioning of a molecule to achieve conformational integrity.
localizationlocPart of the cell where a molecule resides.
metabolic processingmetThe biochemical alteration of a molecule's structure (does not include changes in expression, stability, folding, localization, splicing, or transport).
acetylationaceThe addition of an acetyl group.met
acylationacyThe addition of an acyl group.met