A 16S rRNA gene database which provides chimera screening, standard alignment, and taxonomic classification using multiple published taxonomies.
- Prefix
greengenes- Keywords
- genome/gene rna sequence taxonomy
- License
- CC
- Links
- Homepage
- Publications
- 2006 Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
Identifier Standards
- Pattern for Local Unique Identifiers
-
Local identifiers in GreenGenes should match this regular expression:
^\d+$ - Example Local Unique Identifier
- 100000 Resolve
- Pattern for CURIES
-
Compact URIs (CURIEs) constructed from GreenGenes should match this regular expression:
^greengenes:\d+$ - Example CURIE
- greengenes:100000
Contacts
- Contact
- Missing Contact
Mappings to External Registries
Mappings from records in Bioregistry to external registries comprises the metaregistry. This resource has 7 mappings to external registries with 3 unique external prefixes.
| Registry Name | Registry Metaprefix | External Prefix | Curate |
|---|---|---|---|
| BioContext | biocontext |
GREENGENES
|
|
Integbio
|
integbio |
nbdc01824
|
|
Identifiers.org
|
miriam |
greengenes
|
|
N2T
|
n2t |
greengenes
|
|
NCBI
|
ncbi |
Greengenes
|
|
Prefix Commons
|
prefixcommons |
greengenes
|
|
re3data
|
re3data |
r3d100010549
|
Providers
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 100000 is used to demonstrate the providers
available for GreenGenes. Some providers may use a different example, which is displayed in the table below.
A guide for curating additional providers can be found
here.
| Provider Name | Provider Code | URI |
|---|---|---|
| GreenGenes | greengenes |
http://greengenes.lbl.gov/cgi-bin/show_one_record_v2.pl?prokMSA_id=100000 |
| Bioregistry | bioregistry |
https://bioregistry.io/greengenes:100000 |
| Identifiers.org | miriam |
https://identifiers.org/greengenes:100000 |
| Name-to-Thing | n2t |
https://n2t.net/greengenes:100000 |
Extra Providers
Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.
| Provider Name | Provider Code | URL |
|---|---|---|
| Bio2RDF | bio2rdf |
http://bio2rdf.org/greengenes:100000 |