Difference between revisions of "Taxonomy ontology"

From phenoscape
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The taxonomy ontology will be based on the Catalog of Fishes.
 
The taxonomy ontology will be based on the Catalog of Fishes.
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==Resources==
  
 
Here are some useful resources for creating the taxonomy ontology:
 
Here are some useful resources for creating the taxonomy ontology:
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* [http://www.obofoundry.org/wiki/index.php/Identifiers OBO Identifier Lifecycle]
 
* [http://www.obofoundry.org/wiki/index.php/Identifiers OBO Identifier Lifecycle]
  
The NCBI taxonomy ontology has some special terms and relations which are probably relevant to the fish taxonomy ontology.  One of these is the
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==Taxonomy ontology structure==
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The NCBI taxonomy ontology has some special terms and relations which are probably relevant to the fish taxonomy ontology.  One of these is the "has_rank" typedef, which is used as a property value on the taxon terms:
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<pre>
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[Typedef]
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id: has_rank
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name: has_rank
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def: "A metadata relation between a class and its taxonomic rank (eg species, family)" []
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comment: This is an abstract class for use with the NCBI taxonomy to name the depth of the node within the tree. The link between the node term and th
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e rank is only visible if you are using an obo 1.3 aware browser/editor; otherwise this can be ignored
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is_metadata_tag: true
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</pre>

Revision as of 20:32, 9 August 2007

The taxonomy ontology will be based on the Catalog of Fishes.

Resources

Here are some useful resources for creating the taxonomy ontology:

Taxonomy ontology structure

The NCBI taxonomy ontology has some special terms and relations which are probably relevant to the fish taxonomy ontology. One of these is the "has_rank" typedef, which is used as a property value on the taxon terms:

[Typedef]
id: has_rank
name: has_rank
def: "A metadata relation between a class and its taxonomic rank (eg species, family)" []
comment: This is an abstract class for use with the NCBI taxonomy to name the depth of the node within the tree. The link between the node term and th
e rank is only visible if you are using an obo 1.3 aware browser/editor; otherwise this can be ignored
is_metadata_tag: true