CHEMical INFormation Ontology
Abbreviation: CHEMINF
Homepage https://github.com/semanticchemistry/semanticchemistry
Countries that developed this resource Netherlands
Created in 2010
Taxonomic range
Knowledge Domains
Subjects
How to cite this record FAIRsharing.org: CHEMINF; CHEMical INFormation Ontology; DOI: https://doi.org/10.25504/FAIRsharing.sjhvyy; Last edited: July 9, 2019, 10:24 a.m.; Last accessed: Aug 10 2020 9:34 a.m.
Publication for citation The chemical information ontology: provenance and disambiguation for chemical data on the biological semantic web. Hastings J,Chepelev L,Willighagen E,Adams N,Steinbeck C,Dumontier M; PLoS One ; 2011; 10.1371/journal.pone.0025513;
Record updated: July 8, 2019, 3:23 p.m. by The FAIRsharing Team.
| forum | GitHub Issue Tracker |
Additional Information
| Contact | Egon Willighagen ORCID |
External Links
| Bioportal | http://bioportal.bioontology.org/ontologies/CHEMINF |
| OBO | http://obofoundry.org/ontology/cheminf.html |
No XSD schemas defined
The chemical information ontology: provenance and disambiguation for chemical data on the biological semantic web.
Hastings J,Chepelev L,Willighagen E,Adams N,Steinbeck C,Dumontier M
PLoS One 2011
View in BioPortal.
View in OBO Foundry.
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
ChEMBL is an open large-scale bioactivity database containing information largely manually extracted from the medicinal chemistry literature. Information regarding the compounds tested (including their structures), the biological or physicochemical assays performed on these and the targets of these assays are recorded in a structured form, allowing users to address a broad range of drug discovery questions.
PubChem
PubChem is organized as three linked databases within the NCBI's Entrez information retrieval system. These are PubChem Substance, PubChem Compound, and PubChem BioAssay. PubChem also provides a fast chemical structure similarity search tool. More information about using each component database may be found using the links in the homepage.
OBO Foundry
The Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.
DNA Modification Database
DNAmod is an open-source database (https://dnamod.hoffmanlab.org) that catalogues DNA modifications and provides a single source to learn about their properties. The database annotates the chemical properties and structures of all curated modified DNA bases, and a much larger list of candidate chemical entities. DNAmod includes manual annotations of available sequencing methods, descriptions of their occurrence in nature, and provides existing and suggested nomenclature. DNAmod enables researchers to rapidly review previous work, select mapping techniques, and track recent developments concerning modified bases of interest.
This record is not implemented by any policy.
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Funds
Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
Uppsala University, Sweden (University)
Maintains
Chemical Information Ontology (CHEMINF) Administrators (Consortium) Lead
National Center for Biomedical Ontology (NCBO), Stanford, CA, USA (Research institute)
Grant Number(s)
BB/G022747/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
KoF 07 (Uppsala University, Sweden)
