Exposure Event Associations

$179 / year

This dataset is from the exposure science module added in 2016 to the Comparative Toxicogenomics Database (CTD). The Exposure Events Database collects the effects of chemicals in the environment onto human biology and the measurable events resulting from the exposure to the chemical. The data displayed is a list of research studies with details on the exposure and the outcome of such.

Complexity

This dataset is a listing of “exposure studies”that display “heterogeneous exposure information from different articles published by different laboratories in different journals over the decades to become standardized and centralized into a single repository, facilitating connections between unique studies”, including “parameters for a chemical stressor (e.g. ‘air pollutants’), the type of human receptor studied (e.g. ‘study subjects’) and a geographic location (e.g. ‘United States’).”

In the exposure science module the chemical is the exposure stressor, the receptor is the human exposure to the chemical, the exposure event is a measurable biomarker (e.g. amount of a chemical in the blood) or a protein produced or changed due to the exposure, and the exposure-outcome is an alteration in the characteristics of human biology or anatomy (phenotype) or a disease.

The exposure event biomarker or protein is the evidence of the genetic alteration produced by the chemical, and the outcome (e.g. disease) is the product of that alteration. The outcomes are described using Gene Ontology terms.

1. 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]

Date Created

2004-01-20

Last Modified

2016-04-04

Version

2016-04-04

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 a 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, Gene-Disease Association, Gene Chemical Pathways, Exposure Events Database, Chemical Exposure Results, Heterogeneous Exposure Information, Comparative Toxicogenomics Database, Relationships Between Chemicals and Diseases, Chemical and Disease Inferences, Chemical Disease Hypotheses

Other Titles

Human Response to Stressors, Conditions for Human Stressor, Events Upon Stressors Testing in Humans

NameDescriptionTypeConstraints
Stressor_Agent_NameName of the chemical that causes the stress.stringrequired : 1
Stressor_Agent_IDIdentification number of the chemical by the US National Library of Medicine’s Medical Subject Headings (MeSH). MeSH is a controlled vocabulary of thousands of biomedical terms that serve to standardize the terminology used in published texts that belong to life sciences. Each MeSH term has a unique identifier, which can be from 7 to 8-character length. The MeSH unique identifier was changed to 10-character length after November 2013.stringrequired : 1
Number_Of_ReceptorsNumber of individuals on the study or cohort that were exposed to the chemical.integerlevel : Ratio
Receptor_DescriptionType of patients in the cohort and/or their conditions or diseases.string-
Receptor_NotesNotes on specific characteristics of the group of individuals in the study.string-
Study_LocationCountry in which the study was performed.string-
Assay_MediumsBiological sample or medium used to test the effects of the chemical. Could be a part of the body, body fluids (i.e. urine, blood), environment elements (i.e. air, water), food, animal species, among others.string-
Assayed_Term_NameName of the specific stressor (chemical or gene alteration due to the chemical) included in the analysis.string-
Assayed_Term_IDMeSH or NCBI Gene identifier for the stressor (or the gene alteration caused) included in the analysis. • MeSH is a controlled vocabulary of thousands of biomedical terms that serve to standardize the terminology used in published texts that belong to life sciences. Each MeSH term has a unique identifier, which can be from 7 to 8-character length. The MeSH unique identifier was changed to 10-character length after November 2013. The unique identifier for the gene of the National Center for Biotechnology Information (NCBI)’s Entrez Gene database can be browsed in the Entrez system online to find nomenclature, sequence, products and other specific details of the gene; the identifier is species specific, a gene ID of a human gene can’t be applied to the same gene of a different species.string-
Assay_LevelResult of the measurement of the stressor in the analyzed sample or medium.string-
Assay_Units_Of_Measurementstring-
Assay_Measurement_StatisticStatistics of the measurements performed. For example, if: Assayed_Term_Name= Cobalt, Assay_Level= 0.01, Assay_Units_Of_Measurement= micrograms, Assay_Measurement_Statistic= mean; the interpretation would be that in the study, the ‘mean’ level of ‘cobalt’ was ‘0.01’ ‘micrograms’.string-
Assay_NotesNotes on specific characteristics of the analysis.string-
Outcome_RelationshipType of relationship between the chemical and the disease or phenotype (final outcome of the study). This relationship is the result of statistical tests applied in the study; specific statistical tests were not run in all studies.string-
Disease_NameName of the disease resulting in the individuals exposed to the stressor.string-
Disease_IDUnique identifier assigned to the disease by MeSH or OMIM, linked to the source record(s) for the disease. OMIM (Online Medelian Inheritance in Man) is a database of human genes and genetic disorders that displays the type of genetic variation and expression; OMIM uses a six-digit identifier for each gene or genetic disorder. MeSH is a controlled vocabulary of thousands of biomedical terms (including diseases) that serves to standardize the terminology used in published texts that belong to life sciences. Each MeSH term has a unique identifier, which can be from 7 to 8 character length. The MeSH unique identifier was changed to 10-character length after November 2013.string-
Phenotype_NameGene ontology of the biological or development characteristics observed in the individuals exposed to the stressor. Phenotype is the physical expression of the genes, these could be physical features (i.e. eye color), processes (i.e. testosterone levels), behavior (i.e. personality), diseases and other characteristics. Gene ontology is a controlled vocabulary used to describe or define gene function and properties collecting concepts and the relationships between these concepts. Gene functions by the GO are divided into three main classes: molecular function, cellular component and biological process. Molecular function = names for activities performed at a molecular level by individual products of the gene; these are often appended with the word “activity” to avoid confusion with gene product names (e.g.: adenylate cyclase activity). Cellular component= names for structures inside the cell or structures at molecular level formed by groups of gene products (formed by groups of proteins). Biological process= name for a series of steps that lead to a biological change, these include pathways and other processes in which the activities of multiple gene products intervene.string-
Phenotype_IDPhenotype Gene Ontology term ID. Alphanumerical Identification for GO terms. The GO term ID is used to browse the GO terms in the Gene Ontology database. The GO database is a relational database comprised of the GO ontologies as well as the annotations of genes and gene products to terms in those ontologies. The GO database is the source of all data available through the legacy AmiGO 1.8 browser and search engine.string-
ReferenceIdentification number of the study published in the PubMed database from which the information was obtained. PubMed is a US National Library of Medicine citation database that contains millions of abstracts, references and full-text links of biomedical literature from different trusted sources.integerlevel : Nominal
Stressor_Agent_NameStressor_Agent_IDNumber_Of_ReceptorsReceptor_DescriptionReceptor_NotesStudy_LocationAssay_MediumsAssayed_Term_NameAssayed_Term_IDAssay_LevelAssay_Units_Of_MeasurementAssay_Measurement_StatisticAssay_NotesOutcome_RelationshipDisease_NameDisease_IDPhenotype_NamePhenotype_IDReference
Aflatoxin B1D016604150WorkersChina24961349
ArsenicD00115122Study subjectsMexico20547570
SmokeD012906Netherlandspositive correlationDeathD00364318288318
Tobacco Smoke PollutionD014028751000Study subjectsChina15514239
Tobacco Smoke PollutionD0140281259000Study subjectsChina15514239
Tobacco Smoke PollutionD0140281056000Study subjectsChina15514239
Tobacco Smoke PollutionD0140283395000Study subjectsChina15514239
Tobacco Smoke PollutionD0140289605000Study subjectsChina15514239
Tobacco Smoke PollutionD0140283691000Study subjectsChina15514239
Tobacco Smoke PollutionD0140284209000Study subjectsChina15514239