Comparative Toxicogenomics Database

Abbreviation:CTD

General Information

The Comparative Toxicogenomics Database (CTD) advances understanding of the effects of environmental chemicals on human health. Biocurators manually curate chemical-gene, chemical-disease, and gene-disease relationships from the scientific literature. This core data is then internally integrated to generate inferred chemical-gene-disease networks. Additionally, the core data is integrated with external data sets (such as Gene Ontology and pathway annotations) to predict many novel associations between different data types. A unique and powerful feature of CTD is the inferred relationships generated by data integration that helps turn knowledge into discoveries by identifying novel connections between chemicals, genes, diseases, pathways, and GO annotations that might not otherwise be apparent using other biological resources.

Homepage http://ctdbase.org/

Countries that developed this resource United States

Created in 2004

Taxonomic range

Bos taurus

Caenorhabditis elegans

Knowledge Domains

Subjects

User-defined Tags

Adverse outcome pathways

COVID-19

Systems toxicology

How to cite this record FAIRsharing.org: CTD; Comparative Toxicogenomics Database; DOI: https://doi.org/10.25504/FAIRsharing.h3tjtr; Last edited: July 29, 2020, 9:46 p.m.; Last accessed: Feb 25 2021 6:55 p.m.

Publication for citation The Comparative Toxicogenomics Database: update 2019. Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ; Nucleic Acids Res ; 2018; 10.1093/nar/gky868;

This record is maintained by apdavis

Record updated: July 29, 2020, 11:21 a.m. by apdavis.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'apdavis' at 11:21, 29 Jul 2020 (approved):

	'standardsImplemented' has been modified:
		Before:
			NCBI Taxonomy
			Disease Ontology
			Gene Ontology
			Medical Subject Headings
			Online Mendelian Inheritance in Man Ontology
			Interaction Ontology
			Exposure Ontology
		After:
			Cell Ontology
			NCBI Taxonomy
			Disease Ontology
			Gene Ontology
			Medical Subject Headings
			Online Mendelian Inheritance in Man Ontology
			Interaction Ontology
			Exposure Ontology
			UBER anatomy ONtology
		Added:
			Cell Ontology
			UBER anatomy ONtology
		Removed:

	'supportLinks' has been modified:
		Before:
			FAQ|http://ctdbase.org/help/faq/
			contact form|http://ctdbase.org/help/contact.go
			mailing list|http://ctdbase.org/help/emailListHelp.jsp
			online documentation|http://ctdbase.org/help/
			training|http://ctdbase.org/help/tutorials.jsp
		After:
			FAQ|http://ctdbase.org/help/faq/
			contact form|http://ctdbase.org/help/contact.go
			mailing list|http://ctdbase.org/help/emailListHelp.jsp
			online documentation|http://ctdbase.org/help/
			online documentation|https://www.youtube.com/watch?v=KL_MpE8g0Uc
			training|http://ctdbase.org/help/tutorials.jsp
		Added:
			online documentation|https://www.youtube.com/watch?v=KL_MpE8g0Uc
		Removed:

	'publications' has been modified:
		Before:
			MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.|Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ.|Database (Oxford)|2012
			The Comparative Toxicogenomics Database: update 2013|Davis AP, Murphy CG, Johnson R, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, King BL, Rosenstein MC, Wiegers TC, Mattingly CJ.|Nucleic Acids Research|2013
			Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database|Davis AP, Johnson RJ, Lennon-Hopkins K, Sciaky D, Rosenstein MC, Wiegers TC, Mattingly CJ|Database (Oxford)|2012
			A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions|Davis AP, Wiegers TC, Roberts PM, King BL, Lay JM, Lennon-Hopkins K, Sciaky D, Johnson R, Keating H, Greene N, Hernandez R, McConnell KJ, Enayetallah AE, Mattingly CJ.|Database (Oxford)|2013
			Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Johnson RJ, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, Murphy CG, Mattingly CJ.|PLoS One|2013
			The curation paradigm and application tool used for manual curation of the scientific literature at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Rosenstein MC, Murphy CG, Mattingly CJ.|Database (Oxford)|2011
			DiseaseComps: a metric that discovers similar diseases based upon common toxicogenomic profiles at CTD|Davis AP, Rosenstein MC, Wiegers TC, Mattingly CJ.|Bioinformation|2011
			GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles|Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Hampton TH, Mattingly CJ.|Bioinformation|2009
			The Comparative Toxicogenomics Database facilitates identification and understanding of chemical-gene-disease associations: arsenic as a case study|Davis AP, Murphy CG, Rosenstein MC, Wiegers TC, Mattingly CJ|BMC Med Genomics|2008
			Chemical-Induced Phenotypes at CTD Help Inform the Predisease State and Construct Adverse Outcome Pathways.|Davis AP,Wiegers TC,Wiegers J,Johnson RJ,Sciaky D,Grondin CJ,Mattingly CJ|Toxicol Sci|2018
			Accessing an Expanded Exposure Science Module at the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,Wiegers JA,Mattingly CJ|Environ Health Perspect|2018
			The Comparative Toxicogenomics Database: update 2017.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,King BL,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2016
			Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,King BL,Wiegers JA,Reif DM,Hoppin JA,Mattingly CJ|Environ Health Perspect|2016
			Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database.|Davis AP,Wiegers TC,King BL,Wiegers J,Grondin CJ,Sciaky D,Johnson RJ,Mattingly CJ|PLoS One|2016
			The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.|Davis AP,Grondin CJ,Lennon-Hopkins K,Saraceni-Richards C,Sciaky D,King BL,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2014
			The Comparative Toxicogenomics Database: update 2019.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2018
		After:
			MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.|Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ.|Database (Oxford)|2012
			The Comparative Toxicogenomics Database: update 2013|Davis AP, Murphy CG, Johnson R, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, King BL, Rosenstein MC, Wiegers TC, Mattingly CJ.|Nucleic Acids Research|2013
			Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database|Davis AP, Johnson RJ, Lennon-Hopkins K, Sciaky D, Rosenstein MC, Wiegers TC, Mattingly CJ|Database (Oxford)|2012
			A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions|Davis AP, Wiegers TC, Roberts PM, King BL, Lay JM, Lennon-Hopkins K, Sciaky D, Johnson R, Keating H, Greene N, Hernandez R, McConnell KJ, Enayetallah AE, Mattingly CJ.|Database (Oxford)|2013
			Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Johnson RJ, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, Murphy CG, Mattingly CJ.|PLoS One|2013
			The curation paradigm and application tool used for manual curation of the scientific literature at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Rosenstein MC, Murphy CG, Mattingly CJ.|Database (Oxford)|2011
			DiseaseComps: a metric that discovers similar diseases based upon common toxicogenomic profiles at CTD|Davis AP, Rosenstein MC, Wiegers TC, Mattingly CJ.|Bioinformation|2011
			GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles|Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Hampton TH, Mattingly CJ.|Bioinformation|2009
			The Comparative Toxicogenomics Database facilitates identification and understanding of chemical-gene-disease associations: arsenic as a case study|Davis AP, Murphy CG, Rosenstein MC, Wiegers TC, Mattingly CJ|BMC Med Genomics|2008
			Chemical-Induced Phenotypes at CTD Help Inform the Predisease State and Construct Adverse Outcome Pathways.|Davis AP,Wiegers TC,Wiegers J,Johnson RJ,Sciaky D,Grondin CJ,Mattingly CJ|Toxicol Sci|2018
			Accessing an Expanded Exposure Science Module at the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,Wiegers JA,Mattingly CJ|Environ Health Perspect|2018
			The Comparative Toxicogenomics Database: update 2017.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,King BL,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2016
			Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,King BL,Wiegers JA,Reif DM,Hoppin JA,Mattingly CJ|Environ Health Perspect|2016
			Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database.|Davis AP,Wiegers TC,King BL,Wiegers J,Grondin CJ,Sciaky D,Johnson RJ,Mattingly CJ|PLoS One|2016
			The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.|Davis AP,Grondin CJ,Lennon-Hopkins K,Saraceni-Richards C,Sciaky D,King BL,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2014
			The Comparative Toxicogenomics Database: update 2019.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2018
			Leveraging the Comparative Toxicogenomics Database to fill in knowledge gaps for environmental health: a test case for air pollution-induced cardiovascular disease|Davis AP., Wiegers TC., Grondin CJ., Johnson RJ., Sciaky D., Wiegers J., Mattingly CJ.|Toxicological Sciences|2020
		Added:
			Leveraging the Comparative Toxicogenomics Database to fill in knowledge gaps for environmental health: a test case for air pollution-induced cardiovascular disease|Davis AP., Wiegers TC., Grondin CJ., Johnson RJ., Sciaky D., Wiegers J., Mattingly CJ.|Toxicological Sciences|2020
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'The FAIRsharing Team' at 16:07, 06 Apr 2020 (approved):

	'user_defined_tags' has been modified:
		Before:
			Adverse outcome pathways
			Systems toxicology
		After:
			Adverse outcome pathways
			COVID-19
			Systems toxicology
		Added:
			COVID-19
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'The FAIRsharing Team' at 11:04, 19 Dec 2018 (approved):

	'related_databases' has been modified:
		Before:
			Gene Wiki
			DrugBank
			Reactome - a curated knowledgebase of biological pathways
			NCBI Gene
			PubChem
			Biological General Repository for Interaction Datasets
			Pharmacogenomics Knowledge Base
			UniProt Knowledgebase
			Kyoto Encyclopedia of Genes and Genomes
			Online Mendelian Inheritance in Man
		After:
			Network of Cancer Genes
			Gene Wiki
			DrugBank
			Reactome - a curated knowledgebase of biological pathways
			Pathway Commons
			NCBI Gene
			PubChem
			Biological General Repository for Interaction Datasets
			Pharmacogenomics Knowledge Base
			UniProt Knowledgebase
			Kyoto Encyclopedia of Genes and Genomes
			Online Mendelian Inheritance in Man
			EPA Comptox Chemicals Dashboard
			The Network Data Exchange (NDEx)
			RatMine
		Added:
			Network of Cancer Genes
			Pathway Commons
			EPA Comptox Chemicals Dashboard
			The Network Data Exchange (NDEx)
			RatMine
		Removed:

	'miriam_id' has been modified:
		Before: None
		After:

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'The FAIRsharing Team' at 10:30, 19 Dec 2018 (approved):

	'miriam_id' has been modified:
		Before: 
		After: None

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'apdavis' at 19:49, 18 Dec 2018 (approved):

	'organizations' has been modified:
		Before:
			National Center for Research Resources, National Institutes of Health, Bethesda, MD, USA|http://www.nih.gov/about/almanac/organization/NCRR.htm|Funds
			The National Institute of Environmental Health Sciences, NIH, USA|http://www.niehs.nih.gov/|Funds
			MDI Biological Laboratory, Bar Harbor, ME, USA|https://mdibl.org|Maintains
			North Carolina State University, USA|http://mattinglylab.com/|Maintains
		After:
			National Center for Research Resources, National Institutes of Health, Bethesda, MD, USA|http://www.nih.gov/about/almanac/organization/NCRR.htm|Funds
			The National Institute of Environmental Health Sciences, NIH, USA|http://www.niehs.nih.gov/|Funds
			North Carolina State University, USA|http://mattinglylab.com/|Maintains
		Added:
		Removed:
			MDI Biological Laboratory, Bar Harbor, ME, USA|https://mdibl.org|Maintains

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'apdavis' at 19:38, 18 Dec 2018 (approved):

	'related_databases' has been modified:
		Before:
			Network of Cancer Genes
			Pathway Commons
			EPA Comptox Chemicals Dashboard
			The Network Data Exchange (NDEx)
			RatMine
		After:
			Gene Wiki
			DrugBank
			Reactome - a curated knowledgebase of biological pathways
			NCBI Gene
			PubChem
			Biological General Repository for Interaction Datasets
			Pharmacogenomics Knowledge Base
			UniProt Knowledgebase
			Kyoto Encyclopedia of Genes and Genomes
			Online Mendelian Inheritance in Man
		Added:
			Gene Wiki
			DrugBank
			Reactome - a curated knowledgebase of biological pathways
			NCBI Gene
			PubChem
			Biological General Repository for Interaction Datasets
			Pharmacogenomics Knowledge Base
			UniProt Knowledgebase
			Kyoto Encyclopedia of Genes and Genomes
			Online Mendelian Inheritance in Man
		Removed:
			Network of Cancer Genes
			Pathway Commons
			EPA Comptox Chemicals Dashboard
			The Network Data Exchange (NDEx)
			RatMine

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'The FAIRsharing Team' at 10:42, 08 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Adverse outcome pathways
			Anatomy
			Annotation
			Biomedical Science
			Chemical entity
			Chemical-disease association
			Chemical-gene association
			Comparative genomics
			Curated information
			Disease
			Disease phenotype
			Drug interaction
			Environmental Sciences
			Exposure
			Gene
			Gene Ontology (GO) enrichment
			Gene expression data
			Gene-disease association
			Literature curation
			Molecular interaction
			Network model
			Pathway model
			Phenotype
			Protein
			Protein interactions
			Systems biology
			Systems toxicology
			Text mining
			Toxicogenomics
			Toxicology
		After:
			Adverse outcome pathways
			Adverse reaction
			Anatomy
			Annotation
			Biomedical Science
			Chemical entity
			Chemical-disease association
			Chemical-gene association
			Comparative genomics
			Curated information
			Disease
			Disease phenotype
			Drug interaction
			Environmental Sciences
			Exposure
			Gene
			Gene Ontology (GO) enrichment
			Gene expression data
			Gene-disease association
			Literature curation
			Molecular interaction
			Network model
			Pathway model
			Phenotype
			Protein
			Protein interactions
			Systems biology
			Systems toxicology
			Text mining
			Toxicogenomics
			Toxicology
		Added:
			Adverse reaction
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'apdavis' at 18:43, 27 Sep 2018 (approved):

	'domains' has been modified:
		Before:
			Adverse outcome pathways
			Biomedical Science
			Chemical entity
			Chemical-disease association
			Chemical-gene association
			Disease
			Disease phenotype
			Drug interaction
			Environmental Sciences
			Exposure
			Gene
			Gene Ontology (GO) enrichment
			Gene-disease association
			Molecular interaction
			Phenotype
			Protein
			Systems toxicology
			Text mining
			Toxicogenomics
			Toxicology
		After:
			Adverse outcome pathways
			Anatomy
			Annotation
			Biomedical Science
			Chemical entity
			Chemical-disease association
			Chemical-gene association
			Comparative genomics
			Curated information
			Disease
			Disease phenotype
			Drug interaction
			Environmental Sciences
			Exposure
			Gene
			Gene Ontology (GO) enrichment
			Gene expression data
			Gene-disease association
			Literature curation
			Molecular interaction
			Network model
			Pathway model
			Phenotype
			Protein
			Protein interactions
			Systems biology
			Systems toxicology
			Text mining
			Toxicogenomics
			Toxicology
		Added:
			Anatomy
			Annotation
			Comparative genomics
			Curated information
			Gene expression data
			Literature curation
			Network model
			Pathway model
			Protein interactions
			Systems biology
		Removed:

	'taxonomies' has been modified:
		Before:
			Canis lupus
			Danio rerio
			Eumetazoa
			Gallus gallus
			Homo sapiens
			Mus musculus
			Rattus norvegicus
		After:
			Bos taurus
			Caenorhabditis elegans
			Canis lupus
			Danio rerio
			Drosophila
			Eumetazoa
			Gallus gallus
			Homo sapiens
			Mus musculus
			Rattus norvegicus
		Added:
			Bos taurus
			Caenorhabditis elegans
			Drosophila
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.h3tjtr' by 'apdavis' at 17:26, 27 Sep 2018 (approved):

	'domains' has been modified:
		Before:
			Biomedical Science
			Chemical entity
			Chemical-disease association
			Chemical-gene association
			Disease
			Disease phenotype
			Drug interaction
			Environmental Sciences
			Exposure
			Gene
			Gene Ontology (GO) enrichment
			Gene-disease association
			Molecular interaction
			Protein
			Text mining
			Toxicogenomics
			Toxicology
		After:
			Adverse outcome pathways
			Biomedical Science
			Chemical entity
			Chemical-disease association
			Chemical-gene association
			Disease
			Disease phenotype
			Drug interaction
			Environmental Sciences
			Exposure
			Gene
			Gene Ontology (GO) enrichment
			Gene-disease association
			Molecular interaction
			Phenotype
			Protein
			Systems toxicology
			Text mining
			Toxicogenomics
			Toxicology
		Added:
			Adverse outcome pathways
			Phenotype
			Systems toxicology
		Removed:

	'miriam_id' has been modified:
		Before: None
		After: 

	'publications' has been modified:
		Before:
			MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.|Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ., |Database (Oxford)|2012
			The Comparative Toxicogenomics Database: update 2013|Davis AP, Murphy CG, Johnson R, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, King BL, Rosenstein MC, Wiegers TC, Mattingly CJ.|Nucleic Acids Research|2013
			Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database|Davis AP, Johnson RJ, Lennon-Hopkins K, Sciaky D, Rosenstein MC, Wiegers TC, Mattingly CJ|Database (Oxford)|2012
			A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions|Davis AP, Wiegers TC, Roberts PM, King BL, Lay JM, Lennon-Hopkins K, Sciaky D, Johnson R, Keating H, Greene N, Hernandez R, McConnell KJ, Enayetallah AE, Mattingly CJ.|Database (Oxford)|2013
			Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Johnson RJ, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, Murphy CG, Mattingly CJ.|PLoS One|2013
			The curation paradigm and application tool used for manual curation of the scientific literature at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Rosenstein MC, Murphy CG, Mattingly CJ.|Database (Oxford)|2011
			DiseaseComps: a metric that discovers similar diseases based upon common toxicogenomic profiles at CTD|Davis AP, Rosenstein MC, Wiegers TC, Mattingly CJ.|Bioinformation|2011
			GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles|Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Hampton TH, Mattingly CJ.|Bioinformation|2009
			The Comparative Toxicogenomics Database facilitates identification and understanding of chemical-gene-disease associations: arsenic as a case study|Davis AP, Murphy CG, Rosenstein MC, Wiegers TC, Mattingly CJ|BMC Med Genomics|2008
		After:
			MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.|Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ.|Database (Oxford)|2012
			The Comparative Toxicogenomics Database: update 2013|Davis AP, Murphy CG, Johnson R, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, King BL, Rosenstein MC, Wiegers TC, Mattingly CJ.|Nucleic Acids Research|2013
			Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database|Davis AP, Johnson RJ, Lennon-Hopkins K, Sciaky D, Rosenstein MC, Wiegers TC, Mattingly CJ|Database (Oxford)|2012
			A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions|Davis AP, Wiegers TC, Roberts PM, King BL, Lay JM, Lennon-Hopkins K, Sciaky D, Johnson R, Keating H, Greene N, Hernandez R, McConnell KJ, Enayetallah AE, Mattingly CJ.|Database (Oxford)|2013
			Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Johnson RJ, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, Murphy CG, Mattingly CJ.|PLoS One|2013
			The curation paradigm and application tool used for manual curation of the scientific literature at the Comparative Toxicogenomics Database|Davis AP, Wiegers TC, Rosenstein MC, Murphy CG, Mattingly CJ.|Database (Oxford)|2011
			DiseaseComps: a metric that discovers similar diseases based upon common toxicogenomic profiles at CTD|Davis AP, Rosenstein MC, Wiegers TC, Mattingly CJ.|Bioinformation|2011
			GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles|Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Hampton TH, Mattingly CJ.|Bioinformation|2009
			The Comparative Toxicogenomics Database facilitates identification and understanding of chemical-gene-disease associations: arsenic as a case study|Davis AP, Murphy CG, Rosenstein MC, Wiegers TC, Mattingly CJ|BMC Med Genomics|2008
			Chemical-Induced Phenotypes at CTD Help Inform the Predisease State and Construct Adverse Outcome Pathways.|Davis AP,Wiegers TC,Wiegers J,Johnson RJ,Sciaky D,Grondin CJ,Mattingly CJ|Toxicol Sci|2018
			Accessing an Expanded Exposure Science Module at the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,Wiegers JA,Mattingly CJ|Environ Health Perspect|2018
			The Comparative Toxicogenomics Database: update 2017.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,King BL,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2016
			Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,King BL,Wiegers JA,Reif DM,Hoppin JA,Mattingly CJ|Environ Health Perspect|2016
			Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database.|Davis AP,Wiegers TC,King BL,Wiegers J,Grondin CJ,Sciaky D,Johnson RJ,Mattingly CJ|PLoS One|2016
			The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.|Davis AP,Grondin CJ,Lennon-Hopkins K,Saraceni-Richards C,Sciaky D,King BL,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2014
			The Comparative Toxicogenomics Database: update 2019.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2018
		Added:
			MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.|Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ.|Database (Oxford)|2012
			Chemical-Induced Phenotypes at CTD Help Inform the Predisease State and Construct Adverse Outcome Pathways.|Davis AP,Wiegers TC,Wiegers J,Johnson RJ,Sciaky D,Grondin CJ,Mattingly CJ|Toxicol Sci|2018
			Accessing an Expanded Exposure Science Module at the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,Wiegers JA,Mattingly CJ|Environ Health Perspect|2018
			The Comparative Toxicogenomics Database: update 2017.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,King BL,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2016
			Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database.|Grondin CJ,Davis AP,Wiegers TC,King BL,Wiegers JA,Reif DM,Hoppin JA,Mattingly CJ|Environ Health Perspect|2016
			Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database.|Davis AP,Wiegers TC,King BL,Wiegers J,Grondin CJ,Sciaky D,Johnson RJ,Mattingly CJ|PLoS One|2016
			The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.|Davis AP,Grondin CJ,Lennon-Hopkins K,Saraceni-Richards C,Sciaky D,King BL,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2014
			The Comparative Toxicogenomics Database: update 2019.|Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ|Nucleic Acids Res|2018
		Removed:
			MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.|Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ., |Database (Oxford)|2012

In Collections

Toxicology

Chemistry

COVID-19 Resources

RDA Covid-19 WG Resources

Support

General

FAQ	http://ctdbase.org/help/faq/
contact form	http://ctdbase.org/help/contact.go
Mailing List	None
online documentation	http://ctdbase.org/help/
online documentation	CTD Introduction video
training	http://ctdbase.org/help/tutorials.jsp

Additional Information

Contact

Allan Peter Davis

Tools

Search	http://ctdbase.org/search/
MyGeneVenn	http://ctdbase.org/tools/myGeneVenn.go
MyVenn	http://ctdbase.org/tools/myVenn.go
VennViewer	http://ctdbase.org/tools/vennViewer.go
Batch Query	http://ctdbase.org/tools/batchQuery.go
Set Analyzer	http://ctdbase.org/tools/analyzer.go

Access / Retrieve Data

Conditions of Use

Data Versioning

data download

http://ctdbase.org/downloads/

Data Curation

data integration	http://ctdbase.org/about/dataStatus.go
data import	http://ctdbase.org/about/dataStatus.go
manual curation	http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176677/?report=classic

Data Release

monthly release

http://ctdbase.org/about/dataStatus.go

Publications

MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database.

Davis AP., Wiegers TC., Rosenstein MC., Mattingly CJ.
Database (Oxford) 2012

View Paper (PubMed) View Publication

The Comparative Toxicogenomics Database: update 2013

Davis AP, Murphy CG, Johnson R, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, King BL, Rosenstein MC, Wiegers TC, Mattingly CJ.
Nucleic Acids Research 2013

View Paper (PubMed) View Publication

Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database

Davis AP, Johnson RJ, Lennon-Hopkins K, Sciaky D, Rosenstein MC, Wiegers TC, Mattingly CJ
Database (Oxford) 2012

View Paper (PubMed) View Publication

A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions

Davis AP, Wiegers TC, Roberts PM, King BL, Lay JM, Lennon-Hopkins K, Sciaky D, Johnson R, Keating H, Greene N, Hernandez R, McConnell KJ, Enayetallah AE, Mattingly CJ.
Database (Oxford) 2013

View Paper (PubMed) View Publication

Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the Comparative Toxicogenomics Database

Davis AP, Wiegers TC, Johnson RJ, Lay JM, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D, Murphy CG, Mattingly CJ.
PLoS One 2013

View Paper (PubMed) View Publication

The curation paradigm and application tool used for manual curation of the scientific literature at the Comparative Toxicogenomics Database

Davis AP, Wiegers TC, Rosenstein MC, Murphy CG, Mattingly CJ.
Database (Oxford) 2011

View Paper (PubMed) View Publication

DiseaseComps: a metric that discovers similar diseases based upon common toxicogenomic profiles at CTD

Davis AP, Rosenstein MC, Wiegers TC, Mattingly CJ.
Bioinformation 2011

View Paper (PubMed)

GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles

Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Hampton TH, Mattingly CJ.
Bioinformation 2009

View Paper (PubMed)

The Comparative Toxicogenomics Database facilitates identification and understanding of chemical-gene-disease associations: arsenic as a case study

Davis AP, Murphy CG, Rosenstein MC, Wiegers TC, Mattingly CJ
BMC Med Genomics 2008

View Paper (PubMed)

Chemical-Induced Phenotypes at CTD Help Inform the Predisease State and Construct Adverse Outcome Pathways.

Davis AP,Wiegers TC,Wiegers J,Johnson RJ,Sciaky D,Grondin CJ,Mattingly CJ
Toxicol Sci 2018

View Paper (PubMed) View Publication

Accessing an Expanded Exposure Science Module at the Comparative Toxicogenomics Database.

Grondin CJ,Davis AP,Wiegers TC,Wiegers JA,Mattingly CJ
Environ Health Perspect 2018

View Paper (PubMed) View Publication

The Comparative Toxicogenomics Database: update 2017.

Davis AP,Grondin CJ,Johnson RJ,Sciaky D,King BL,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ
Nucleic Acids Res 2016

View Paper (PubMed) View Publication

Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database.

Grondin CJ,Davis AP,Wiegers TC,King BL,Wiegers JA,Reif DM,Hoppin JA,Mattingly CJ
Environ Health Perspect 2016

View Paper (PubMed) View Publication

Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database.

Davis AP,Wiegers TC,King BL,Wiegers J,Grondin CJ,Sciaky D,Johnson RJ,Mattingly CJ
PLoS One 2016

View Paper (PubMed) View Publication

The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.

Davis AP,Grondin CJ,Lennon-Hopkins K,Saraceni-Richards C,Sciaky D,King BL,Wiegers TC,Mattingly CJ
Nucleic Acids Res 2014

View Paper (PubMed) View Publication

The Comparative Toxicogenomics Database: update 2019.

Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ
Nucleic Acids Res 2018

View Paper (PubMed) View Publication

Leveraging the Comparative Toxicogenomics Database to fill in knowledge gaps for environmental health: a test case for air pollution-induced cardiovascular disease

Davis AP., Wiegers TC., Grondin CJ., Johnson RJ., Sciaky D., Wiegers J., Mattingly CJ.
Toxicological Sciences 2020

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by apdavis

Funds

National Center for Research Resources, National Institutes of Health, Bethesda, MD, USA (Government body)
The National Institute of Environmental Health Sciences, NIH, USA (Government body)

Maintains

North Carolina State University, USA (University) Lead

Grant Number(s)

ES014065 (The National Institute of Environmental Health Sciences, NIH, USA)
ES019604 (The National Institute of Environmental Health Sciences, NIH, USA)

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