Guidelines for database cross references: Difference between revisions
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DRAFT | DRAFT - see also http://wiki.geneontology.org/index.php/Curator_Guide:_Enzymes_and_Reactions and http://wiki.geneontology.org/index.php/Enzymes_and_EC_mappings | ||
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Includes | Includes | ||
* PMIDs (ideally all terms should have a PMID, but we have many terms not having them yet) | * PMIDs (ideally all terms should have a PMID, but we have many terms not having them yet) | ||
* Rhea for enzymes | * Rhea for enzymes* | ||
Can also include (if nothing else is available) | Can also include (if nothing else is available) | ||
* ISBN | * ISBN | ||
* Wikipedia | * Wikipedia | ||
* EC | * EC* | ||
* MetaCyc | * KEGG* | ||
* | * MetaCyc* | ||
* TCDB* | |||
* *Only relevant for MF terms. | |||
* '''Definition database cross-references also need to be added as General database cross-references.''' | |||
==General database cross-references== | ==General database cross-references== | ||
General database cross-references are links to external resources. | General database cross-references are links to external resources. | ||
* EC | * EC | ||
* KEGG | |||
* MetaCyc | * MetaCyc | ||
* | * Reactome | ||
* Rhea | |||
* TCDB | |||
Revision as of 11:18, 25 June 2020
See Ontology_Editors_Daily_Workflow for creating branches and basic Protégé instructions.
DRAFT - see also http://wiki.geneontology.org/index.php/Curator_Guide:_Enzymes_and_Reactions and http://wiki.geneontology.org/index.php/Enzymes_and_EC_mappings
We have two types of cross-references in the ontology: (1) Definition database cross-references and (2) General database cross-references.
Definition database cross-references
Definition database cross-references are citable references that have helped generate the term and term's definition. Includes
- PMIDs (ideally all terms should have a PMID, but we have many terms not having them yet)
- Rhea for enzymes*
Can also include (if nothing else is available)
- ISBN
- Wikipedia
- EC*
- KEGG*
- MetaCyc*
- TCDB*
- *Only relevant for MF terms.
- Definition database cross-references also need to be added as General database cross-references.
General database cross-references
General database cross-references are links to external resources.
- EC
- KEGG
- MetaCyc
- Reactome
- Rhea
- TCDB
See Ontology_Editors_Daily_Workflow for commit, push and merge instructions.
Review Status
Last reviewed: February 26, 2020