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merge changes for 2.14 #117

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merged 16 commits into from
Sep 12, 2017
Merged

merge changes for 2.14 #117

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d809b8b
anatomy-bridge updated to use canonical uberon-bridge-to-nifstd.owl i…
tgbugs Sep 10, 2017
0fbeb53
NIFMOL deprecate NIFMOL:GO_0043256 and move triples to GO:0043256
tgbugs Sep 10, 2017
b339cb2
ksdesc-defs.ttl fixed birlex id typo from ksdesc repo
tgbugs Sep 10, 2017
67eb82c
NEIB uberon-bridge-to-nifstd.ttl remove dupes
tgbugs Sep 11, 2017
c35df9f
NIFGA NIFMOLINF NIFNEURCR removed unused APs and OPs
tgbugs Sep 11, 2017
983edd1
NIFMOL corrected so-xp.obo -> so for predicates and qnamefix
tgbugs Sep 11, 2017
fa4c693
NIFMOL fixed improperly formatted GenBank accession ids
tgbugs Sep 11, 2017
3fa2636
unused/sequence_slim.ttl cleanup, we may be reincorporating this as s…
tgbugs Sep 11, 2017
1519b9b
unused/NIF-Neuron-Quality-Bridge.ttl fixed ontology iri
tgbugs Sep 11, 2017
3caeb64
NIFORG quoting fix
tgbugs Sep 11, 2017
e390c98
NIFMOL Fluoro ruby identifier updated to NLX:65982 (from interlex) si…
tgbugs Sep 11, 2017
e4bf162
NIFGAInf removed object properties with old iris that are now kept in…
tgbugs Sep 11, 2017
8b7aa28
curies added SWOL
tgbugs Sep 11, 2017
a8cb535
NEIB qnamefix following SWOL addition
tgbugs Sep 11, 2017
864df21
resources updated iris to things that resolve
tgbugs Sep 11, 2017
241050c
NIFMOL etc second part of e390c98a5d0de9de4a2063bb808cbca76cc77ca8 re…
tgbugs Sep 11, 2017
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1 change: 1 addition & 0 deletions scigraph/nifstd_curie_map.yaml
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Expand Up @@ -50,6 +50,7 @@
'SIO': 'http://semanticscience.org/resource/SIO_'
'EFO': 'http://www.ebi.ac.uk/efo/EFO_'
'SWO': 'http://www.ebi.ac.uk/efo/swo/SWO_'
'SWOL': 'http://www.ebi.ac.uk/swo/license/SWO_'
'UBERON': 'http://purl.obolibrary.org/obo/UBERON_'
'ERO': 'http://purl.obolibrary.org/obo/ERO_'
'NCBIGene': 'http://www.ncbi.nlm.nih.gov/gene/'
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7 changes: 0 additions & 7 deletions ttl/NIF-GrossAnatomy.ttl
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Expand Up @@ -78,13 +78,6 @@ ro:located_in a owl:ObjectProperty .

ro:proper_part_of a owl:ObjectProperty .

skos:broader a owl:ObjectProperty ;
rdfs:isDefinedBy <http://www.w3.org/2004/02/skos/core> .

### Annotation Properties

definition: a owl:AnnotationProperty .

### Classes

NIFGA:birnlex_3 a owl:Class ;
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11 changes: 6 additions & 5 deletions ttl/NIF-Molecule-Role-Bridge.ttl
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Expand Up @@ -6,6 +6,7 @@
@prefix NIFMOL: <http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule.owl#> .
@prefix NIFMOLROLE: <http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule-Role-Bridge#> .
@prefix NIFSUB: <http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#> .
@prefix NLX: <http://uri.neuinfo.org/nif/nifstd/nlx_> .
@prefix OBOANN: <http://ontology.neuinfo.org/NIF/Backend/OBO_annotation_properties.owl#> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix PR: <http://purl.obolibrary.org/obo/PR_> .
Expand Down Expand Up @@ -189,11 +190,6 @@ CHEBI:52993 a owl:Class ;
owl:onProperty BIRNOBO:birnlex_17 ;
owl:someValuesFrom NIFCHEM:nlx_chem_090801 ] .

<http://www.owl-ontologies.com/Ontology1260386345.owl#v> a owl:Class ;
rdfs:subClassOf [ a owl:Restriction ;
owl:onProperty BIRNOBO:birnlex_17 ;
owl:someValuesFrom NIFINV:nlx_inv_101204 ] .

NIFCHEM:DB00813 a owl:Class ;
rdfs:subClassOf [ a owl:Restriction ;
owl:onProperty BIRNOBO:birnlex_17 ;
Expand Down Expand Up @@ -466,6 +462,11 @@ NIFMOLROLE:nlx_mol_101277 a owl:Class ;

NIFSUB:sao587592318 a owl:Class .

NLX:65982 a owl:Class ;
rdfs:subClassOf [ a owl:Restriction ;
owl:onProperty BIRNOBO:birnlex_17 ;
owl:someValuesFrom NIFINV:nlx_inv_101204 ] .

PR:000005454 a owl:Class ;
rdfs:subClassOf [ a owl:Restriction ;
owl:onProperty BIRNOBO:birnlex_17 ;
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9 changes: 4 additions & 5 deletions ttl/NIF-Molecule-Role-Inferred.ttl
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Expand Up @@ -5,6 +5,7 @@
@prefix NIFMOL: <http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule.owl#> .
@prefix NIFMOLINF: <http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule-Role-Inferred.owl#> .
@prefix NIFMOLROLE: <http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule-Role-Bridge#> .
@prefix NLX: <http://uri.neuinfo.org/nif/nifstd/nlx_> .
@prefix OBOANN: <http://ontology.neuinfo.org/NIF/Backend/OBO_annotation_properties.owl#> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix PR: <http://purl.obolibrary.org/obo/PR_> .
Expand All @@ -22,8 +23,6 @@

BIRNOBO:birnlex_17 a owl:ObjectProperty .

NIFMOLINF:objectProperty_3 a owl:ObjectProperty .

### Annotation Properties

OBOANN:createdDate a owl:AnnotationProperty .
Expand Down Expand Up @@ -122,9 +121,6 @@ CHEBI:50786 a owl:Class ;
CHEBI:52993 a owl:Class ;
rdfs:subClassOf NIFMOLINF:nlx_chem_1003011 .

<http://www.owl-ontologies.com/Ontology1260386345.owl#v> a owl:Class ;
rdfs:subClassOf NIFMOL:nlx_mol_1012003 .

NIFCHEM:DB00813 a owl:Class ;
rdfs:subClassOf NIFMOLINF:nlx_chem_1003011 .

Expand Down Expand Up @@ -265,6 +261,9 @@ NIFMOLROLE:nlx_mol_100306 a owl:Class .

NIFMOLROLE:nlx_mol_101277 a owl:Class .

NLX:65982 a owl:Class ;
rdfs:subClassOf NIFMOL:nlx_mol_1012003 .

PR:000005454 a owl:Class ;
rdfs:subClassOf NIFMOLROLE:nlx_mol_100305 .

Expand Down
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