ModelSEED is a platform for creating genome-scale metabolic network reconstructions for microbes and plants. As part of the platform, a biochemistry database is managed that contains reactions unique to ModelSEED as well as reactions aggregated from other databases or from manually-curated genome-scale metabolic network reconstructions.
- Prefix
seed.reaction- Links
- Homepage
Identifier Standards
- Pattern for Local Unique Identifiers
-
Local identifiers in SEED Reactions should match this regular expression:
^rxn\d+$ - Example Local Unique Identifier
- rxn00001 Resolve
- Pattern for CURIES
-
Compact URIs (CURIEs) constructed from SEED Reactions should match this regular expression:
^seed\.reaction:rxn\d+$ - Example CURIE
- seed.reaction:rxn00001
Contacts
- Contact
- Missing Contact
- Identifier Space Owner
-
Argonne National Laboratory
Mappings to External Registries
Mappings from records in Semantic Farm to external registries comprises the metaregistry. This resource has 3 mappings to external registries with 1 unique external prefixes.
| Registry Name | Registry Metaprefix | External Prefix | Curate |
|---|---|---|---|
Biolink
|
biolink |
SEED.REACTION
|
|
Identifiers.org
|
miriam |
seed.reaction
|
|
N2T
|
n2t |
seed.reaction
|
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 rxn00001 is used to demonstrate the providers
available for SEED Reactions. 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 |
|---|---|---|
| SEED Reactions | seed.reaction |
http://modelseed.org/biochem/reactions/rxn00001 |
| Bioregistry | bioregistry |
https://bioregistry.io/seed.reaction:rxn00001 |
| Identifiers.org | miriam |
https://identifiers.org/seed.reaction:rxn00001 |
| Name-to-Thing | n2t |
https://n2t.net/seed.reaction:rxn00001 |