Jim Balhoff
Jim Balhoff
So that readers can find BSPO relations from the RO docs.
In GO there is an axiom: [role](http://purl.obolibrary.org/obo/BFO_0000023) EquivalentTo [role](http://purl.obolibrary.org/obo/CHEBI_50906) This equates the role class in CHEBI to the one used in RO, and catches cases when chemical roles (specifically dependent...
Is there any standard for how to relate a particular 'distance' to the things it is between? The definition is: "A quality that is the extent of space between two...
There are a couple of mappings that end up in Uberon `cl-bridge-to-zfa.owl` that are unsatisfiable because the taxon constraints in CL or Uberon exclude zebrafish: - [auditory hair cell](http://purl.obolibrary.org/obo/CL_0000202) to...
These logical definitions are proposed via decomposing term names into DOS-DP pattern matches. An additional one that could be changed is [organelle membrane](http://purl.obolibrary.org/obo/GO_0031090). However it's not clear to me from...
 - [H(+) + NADP(+) + 2 reduced [2Fe-2S]-[ferredoxin] NADPH + 2 oxidized [2Fe-2S]-[ferredoxin]](http://rdf.rhea-db.org/20128) ProperSubClassOf [METACYC:RXN-14040](http://metacyc.org/RXN-14040) 0.1 - [H(+) + NADP(+) + 2 reduced [2Fe-2S]-[ferredoxin] = NADPH + 2 oxidized...
 - [(9Z,12Z)-octadecadienoyl-CoA + 2 [Fe(II)-cytochrome b5] + 2 H(+) + O2 = (6Z,9Z,12Z)-octadecatrienoyl-CoA + 2 [Fe(III)-cytochrome b5] + 2 H2O](http://rdf.rhea-db.org/47140) EquivalentTo [EC:1.14.19.3](http://purl.uniprot.org/enzyme/1.14.19.3) (most probable) 0.75 - [(9Z,12Z,15Z)-octadecatrienoyl-CoA + 2...
[mitochondrial acetyl-CoA biosynthetic process from pyruvate](http://purl.obolibrary.org/obo/GO_0061732) has logical definition: ``` ('starts with' some 'mitochondrial pyruvate transmembrane transport') and ('ends with' some 'pyruvate dehydrogenase [NAD(P)+] activity') ```
Recent Jena tools provide shacl and shex commands.