Registry Genomes Online Database

The Genomes OnLine Database (GOLD) catalogues genome and metagenome sequencing projects from around the world, along with their associated metadata. Information in GOLD is organized into four levels: Study, Biosample/Organism, Sequencing Project and Analysis Project.

Prefix

gold

Keywords

genome genomics metabolomics metagenomics ontology and terminology phylogenetics

Links

Homepage

Contact

TBK Reddy 0000-0002-0871-5567 TBKReddy

Pattern for Local Unique Identifiers

Local identifiers in Genomes Online Database should match this regular expression:
^[A-Z][a-z][0-9]+$

Example Local Unique Identifier

Gs0000008 Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Genomes Online Database should match this regular expression:
^gold:[A-Z][a-z][0-9]+$

Example CURIE

gold:Gs0000008

Publications

Ontology

A summary of the relations in the Semantic Farm schema can be found here.

Provided By

gold.genome

Has incoming URI collisions

The following resources share a URI format string with gold:
gold.meta

When generating an extended prefix map, their respective CURIE prefixes and URI prefixes are merged into the record for gold. If you believe that these are distinct semantic spaces and should not be merged, please open a new issue on the Semantic Farm issue tracker for discussion.

Metaregistry Genomes Online Database

The metaregistry provides mappings between the Semantic Farm and other registries. There are 5 mappings to external registries for this resource with 4 unique external prefixes.

Registry Name	Registry Metaprefix	External Prefix
FAIRSharing	`fairsharing`	`FAIRsharing.5q1p14`
Integbio	`integbio`	`nbdc00483`
Identifiers.org	`miriam`	`gold`
Prefix Commons	`prefixcommons`	`gold`
re3data	`re3data`	`r3d100010808`

Providers

Suggest

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 Gs0000008 is used to demonstrate the providers available for Genomes Online Database. 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
Genomes Online Database	`gold`	https://gold.jgi.doe.gov/resolver?id=Gs0000008
Bioregistry	`bioregistry`	https://bioregistry.io/gold:Gs0000008
Identifiers.org	`miriam`	https://identifiers.org/gold:Gs0000008

Extra Providers

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
`bio2rdf`	Bio2RDF	http://bio2rdf.org/gold:Gs0000008

This name annotation was originally annotated in Bioregistry and is redistributed under the CC0 license.

Get the name:

>>> import bioregistry as br
>>> br.get_name("gold")
'Genomes Online Database'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("gold")
'https://gold.jgi.doe.gov/'

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("gold")
'TBK Reddy'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("gold")
'tbreddy@lbl.gov'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("gold")
'TBKReddy'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("gold")
'0000-0002-0871-5567'