The HGNC (HUGO Gene Nomenclature Committee) provides an approved gene name and symbol (short-form abbreviation) for each known human gene. All approved symbols are stored in the HGNC database, and each symbol is unique. This collection refers to records using the HGNC symbol.
hgnc.symbol
Local identifiers in HGNC gene symbol should match this
regular expression:
^[A-Za-z-0-9_]+(\@)?$
Compact URIs (CURIEs) constructed from HGNC gene symbol should match
this regular expression:
^hgnc\.symbol:[A-Za-z-0-9_]+(\@)?$
A summary of the relations in the Semantic Farm schema can be found here.
The metaregistry provides mappings between the Semantic Farm and other registries. There are 5 mappings to external registries for this resource with 3 unique external prefixes.
| Registry Name | Registry Metaprefix | External Prefix | Curate |
|---|---|---|---|
| BioContext | biocontext |
HGNC.SYMBOL
|
|
Identifiers.org
|
miriam |
hgnc.symbol
|
|
N2T
|
n2t |
hgnc.symbol
|
|
| TogoID | togoid |
HgncSymbol
|
|
|
Wikidata
|
wikidata |
P353
|
A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).
The local unique identifier DAPK1 is used to demonstrate the providers
available for HGNC gene symbol. Some providers may use a different example, which is displayed in the table below.
A guide for curating additional providers can be found
here.
| Name | Metaprefix | URI |
|---|---|---|
| HGNC gene symbol | hgnc.symbol |
https://www.genenames.org/data/gene-symbol-report/#!/symbol/DAPK1 |
| Bioregistry | bioregistry |
https://bioregistry.io/hgnc.symbol:DAPK1 |
| Identifiers.org | miriam |
https://identifiers.org/hgnc.symbol:DAPK1 |
| Name-to-Thing | n2t |
https://n2t.net/hgnc.symbol:DAPK1 |
Additional providers curated in the Semantic Farm are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.
| Code | Name | URL |
|---|---|---|
cbgda |
CRISPR Based Gene-Disease Associations | http://cbgda.zhounan.org/geneinfo?gene=DAPK1 |
depmap |
DepMap Gene Summary | https://depmap.org/portal/gene/DAPK1 |
g2p |
Genomics 2 Proteins Portal | https://g2p.broadinstitute.org/gene/DAPK1 |
hubmap.biomarker |
Human BioMolecular Atlas Program Biomarkers | https://portal.hubmapconsortium.org/genes/DAPK1 |
oncomx |
OncoMX | https://oncomx.org/searchview/?gene=DAPK1 |
pathwaycommons |
Pathway Commons Gene Interations | https://apps.pathwaycommons.org/interactions?source=DAPK1 |
resolute |
RESOLUTE | https://re-solute.eu/knowledgebase/gene/DAPK1 |