This is a terminology for the Human Brain Pharmacome (HBP) project, containing terms representing the molecular biology relevant to neurodegenerative disease.
Contents • Contributing • Exports
This tab-separated values file contains four columns describing entities in the HBP terminology:
- Identifier
- Label
- References (namespace prefixed, comma separated. Example:
pmid:1234, pmid:1245, pmc:PMC1234) - Description (no double quote characters allowed)
This tab-separated values contains four columns describing synonyms for terms in the HBP terminology:
- Identifier
- Synonym
- References (namespace prefixed, comma separated. Example:
pmid:1234, pmid:1245, pmc:PMC1234) - Specificity (one of
EXACT,BROAD,NARROW, orRELATED. See: https://owlcollab.github.io/oboformat/doc/GO.format.obo-1_4.html)
This tab-separated values file contains three columns describing other databases that have listed this equivalent entity:
- HBP Identifier
- Database (preferred using identifiers.org)
- Identifier
This tab-separated values file describes relations between terms in the HBP terminology:
- Source Namespace
- Source Identifier
- Source Name
- Relationship (e.g.,
is_a,part_of, etc.) - Target Namespace
- Target Identifier
- Target Name
Contributions are welcome! Please submit all pull requests to https://github.com/pharmacome/terminology.
Tips:
- When adding a new term, make sure that the entry has a new and unique identifier that follows
the regular expression
^HBP\d{5}$ - Only capitalize proper nouns in term labels (e.g., Tau is a named protein, so it is capitalized but hyperphosphorylation is not)
- Normalize greek letters to full english names, then add synonyms with the greek letter.
- References should follow the https://identifiers.org semantic web style (e.g.,
pmid:1234,pmid:1245,pmc:PMC1234, etc.)
For generating a BEL namespace and other resources, see: https://github.com/pharmacome/terminology/tree/master/export