Controlled Vocabularies and Ontologies
Help Index > Controlled Vocabularies and Ontologies
SysMO-DB recommends using the following controlled vocabularies and data resources for data annotation
| Entity | Resource | Example ID | Database URL | MIRIAM URN |
|---|---|---|---|---|
| Protein | UNIPROT | P23470 | http://www.ebi.uniprot.org | urn:miriam:uniprot |
| Chemical | ChEBI | CHEBI:17234 | http://www.ebi.ac.uk/chebi/ | urn:miriam:obo.chebi |
| Chemical | KEGG Compund | C0003 | http://www.genome.jp/kegg/ligand.html | urn:miriam:kegg.compound |
| Chemical | PubChem | CID:24749 | http://pubchem.ncbi.nlm.nih.gov/ |
urn:miriam:pubchem.compound |
| Reaction Kinetics | SABIO-RK | 20936 | http://sabio.villa-bosch.de/ | urn:miriam:sabiork.reaction |
| Enzymes | Enzyme Nomenclature (EC) IntEnz | EC 1.14.13.39 | http://www.ebi.ac.uk/intenz/ | urn:miriam:ec-code |
| Pathways | KEGG Pathways | map00480 | http://www.genome.jp/kegg/pathway.html | urn:miriam:kegg.pathway |
| Cellular Location | Gene Ontology | GO:0016020 | http://www.geneontology.org/ | urn:miriam:obo.go |
| Molecular Function | Gene Ontology | GO:0004857 | http://www.geneontology.org/ | urn:miriam:obo.go |
| Biological Process | Gene Ontology | GO:0071581 | http://www.geneontology.org/ | urn:miriam:obo.go |
| Literature | PubMed | PMID:19112082 | http://www.ncbi.nlm.nih.gov/pubmed/ | urn:miriam:pubmed |
