Identifying candidate reference chemicals for in vitro testing of the retinoid pathway for predictive developmental toxicity
Dataset for Baker, et al., Identifying candidate reference chemicals for in vitro testing of the retinoid pathway for predictive developmental toxicity, published in journal Altex, https://doi.org/10.14573/altex.2202231
The two zip files are Excel Macro files, but could not be loaded into SciHub unless they were converted to zip files.
This tool was built using the EPA's LitDB, a database of MeSH terms from PubMed/Medline records downloaded from NLM.
1. A set of MeSH terms for targets of interest was assembled.
2. The database was searched for occurrences of those terms with antagonist OR agonist subheading in PubMed citations.
3. Non-protein chemicals annotated as major topics in that set of articles was extracted.
4. The chemical MeSH term and the protein target MeSH term were output to Excel in a long format (Detail sheet) and pivot table format (Overview sheet).
5. VBA code was added that allows navigation between the Overview sheet and the Detail sheet.
This dataset is associated with the following publication:
Baker, N., J. Pierro, L. Taylor, and T. Knudsen. Identifying candidate reference chemicals for in vitro testing of the retinoid pathway for predictive developmental toxicity. ALTEX. Society ALTEX Edition, Kuesnacht, SWITZERLAND, 40(2): 217-236, (2023).
Resources
3 resources available
-
AbstractSifter_retinoid.zip
APPLICATION/ZIP -
LitDB_RetinoidPathway_altex.zip
APPLICATION/ZIP -
SupplementalMaterial_altex.docx
APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.WORDPROCESSINGML.DOCUMENT
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Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[ "020:00" ] |
| contactPoint |
{ "fn": "Thomas Knudsen", "hasEmail": "mailto:knudsen.thomas@epa.gov" } |
| description | Dataset for Baker, et al., Identifying candidate reference chemicals for in vitro testing of the retinoid pathway for predictive developmental toxicity, published in journal Altex, https://doi.org/10.14573/altex.2202231 The two zip files are Excel Macro files, but could not be loaded into SciHub unless they were converted to zip files. This tool was built using the EPA's LitDB, a database of MeSH terms from PubMed/Medline records downloaded from NLM. 1. A set of MeSH terms for targets of interest was assembled. 2. The database was searched for occurrences of those terms with antagonist OR agonist subheading in PubMed citations. 3. Non-protein chemicals annotated as major topics in that set of articles was extracted. 4. The chemical MeSH term and the protein target MeSH term were output to Excel in a long format (Detail sheet) and pivot table format (Overview sheet). 5. VBA code was added that allows navigation between the Overview sheet and the Detail sheet. This dataset is associated with the following publication: Baker, N., J. Pierro, L. Taylor, and T. Knudsen. Identifying candidate reference chemicals for in vitro testing of the retinoid pathway for predictive developmental toxicity. ALTEX. Society ALTEX Edition, Kuesnacht, SWITZERLAND, 40(2): 217-236, (2023). |
| distribution |
[ { "title": "AbstractSifter_retinoid.zip", "mediaType": "application/zip", "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1529822/AbstractSifter_retinoid.zip" }, { "title": "LitDB_RetinoidPathway_altex.zip", "mediaType": "application/zip", "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1529822/LitDB_RetinoidPathway_altex.zip" }, { "title": "SupplementalMaterial_altex.docx", "mediaType": "application/vnd.openxmlformats-officedocument.wordprocessingml.document", "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1529822/SupplementalMaterial_altex.docx" } ] |
| identifier | https://doi.org/10.23719/1529822 |
| keyword |
[ "Developmental Toxicity", "In vitro profiling", "Predictive Toxicology", "Retinoid signaling pathway" ] |
| license | https://pasteur.epa.gov/license/sciencehub-license.html |
| modified | 2022-06-08 |
| programCode |
[ "020:000" ] |
| publisher |
{ "name": "U.S. EPA Office of Research and Development (ORD)", "subOrganizationOf": { "name": "U.S. Environmental Protection Agency", "subOrganizationOf": { "name": "U.S. Government" } } } |
| references |
[ "https://doi.org/10.14573/altex.2202231" ] |
| rights |
null
|
| title | Identifying candidate reference chemicals for in vitro testing of the retinoid pathway for predictive developmental toxicity |
