From 666e6bd1d7dbbdd26501b86bd30abcc26704aa98 Mon Sep 17 00:00:00 2001 From: Clare72 Date: Thu, 17 Aug 2023 13:24:05 +0100 Subject: [PATCH 1/6] add synapses_restricted_to_region --- src/ontology/ro-edit.owl | 11 +++++++++++ 1 file changed, 11 insertions(+) diff --git a/src/ontology/ro-edit.owl b/src/ontology/ro-edit.owl index 9ed7ec35..644ea84f 100644 --- a/src/ontology/ro-edit.owl +++ b/src/ontology/ro-edit.owl @@ -553,6 +553,7 @@ Declaration(ObjectProperty(obo:RO_0013006)) Declaration(ObjectProperty(obo:RO_0013007)) Declaration(ObjectProperty(obo:RO_0013008)) Declaration(ObjectProperty(obo:RO_0013009)) +Declaration(ObjectProperty(obo:RO_0013010)) Declaration(ObjectProperty(obo:RO_0014001)) Declaration(ObjectProperty(obo:RO_0015001)) Declaration(ObjectProperty(obo:RO_0015002)) @@ -6351,6 +6352,16 @@ AnnotationAssertion(rdfs:comment obo:RO_0013009 "Not restricting range to 'cell' AnnotationAssertion(rdfs:label obo:RO_0013009 "sends synaptic output to cell"@en) SubObjectPropertyOf(obo:RO_0013009 obo:RO_0002120) +# Object Property: obo:RO_0013010 (synapses restricted to region) + +AnnotationAssertion(obo:IAO_0000115 obo:RO_0013010 "A relationship between a neuron and a region, where the neuron has essentially all of its synapses in that region.") +AnnotationAssertion(dc:contributor obo:RO_0013010 ) +AnnotationAssertion(dc:date obo:RO_0013010 "2023-08-17T12:17:24Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasExactSynonym obo:RO_0013010 "intrinsic to") +AnnotationAssertion(rdfs:comment obo:RO_0013010 "Relationship may still be used if a very small number of synapses fall slightly outside the boundaries of the region.") +AnnotationAssertion(rdfs:label obo:RO_0013010 "synapses restricted to region"@en) +SubObjectPropertyOf(obo:RO_0013010 obo:RO_0013001) + # Object Property: obo:RO_0014001 (disease has infectious agent) AnnotationAssertion(obo:IAO_0000115 obo:RO_0014001 "A relationship between a disease and an infectious agent where the material basis of the disease is an infection with some infectious agent.") From acf8f8d5b7322c8778a795fb443926226d5ae6d6 Mon Sep 17 00:00:00 2001 From: Clare72 Date: Fri, 18 Aug 2023 10:25:05 +0100 Subject: [PATCH 2/6] add example of usage --- src/ontology/ro-edit.owl | 1 + 1 file changed, 1 insertion(+) diff --git a/src/ontology/ro-edit.owl b/src/ontology/ro-edit.owl index 644ea84f..fb369409 100644 --- a/src/ontology/ro-edit.owl +++ b/src/ontology/ro-edit.owl @@ -6354,6 +6354,7 @@ SubObjectPropertyOf(obo:RO_0013009 obo:RO_0002120) # Object Property: obo:RO_0013010 (synapses restricted to region) +AnnotationAssertion(obo:IAO_0000112 obo:RO_0013010 "An optic lobe intrinsic neuron has its synapses restricted to optic lobe neuropil.") AnnotationAssertion(obo:IAO_0000115 obo:RO_0013010 "A relationship between a neuron and a region, where the neuron has essentially all of its synapses in that region.") AnnotationAssertion(dc:contributor obo:RO_0013010 ) AnnotationAssertion(dc:date obo:RO_0013010 "2023-08-17T12:17:24Z"^^xsd:dateTime) From 3029a6716fd97fba311e500ec67302b9f522b2c3 Mon Sep 17 00:00:00 2001 From: Clare72 Date: Fri, 18 Aug 2023 10:25:24 +0100 Subject: [PATCH 3/6] add property chain --- src/ontology/ro-edit.owl | 1 + 1 file changed, 1 insertion(+) diff --git a/src/ontology/ro-edit.owl b/src/ontology/ro-edit.owl index fb369409..ca9016bb 100644 --- a/src/ontology/ro-edit.owl +++ b/src/ontology/ro-edit.owl @@ -7072,6 +7072,7 @@ SubObjectPropertyOf(ObjectPropertyChain(obo:RO_0013001 obo:BFO_0000050) obo:RO_0 SubObjectPropertyOf(ObjectPropertyChain(obo:RO_0013002 obo:BFO_0000050) obo:RO_0013002) SubObjectPropertyOf(ObjectPropertyChain(obo:RO_0013003 obo:BFO_0000050) obo:RO_0013003) SubObjectPropertyOf(ObjectPropertyChain(obo:RO_0013007 obo:BFO_0000050) obo:RO_0013007) +SubObjectPropertyOf(ObjectPropertyChain(obo:RO_0013010 obo:BFO_0000050) obo:RO_0013010) SubObjectPropertyOf(ObjectPropertyChain(obo:RO_0015001 obo:RO_0015003) obo:RO_0015001) SubObjectPropertyOf(ObjectPropertyChain(ObjectInverseOf(obo:BFO_0000066) obo:RO_0002234) obo:RO_0003000) SubObjectPropertyOf(ObjectPropertyChain(ObjectInverseOf(obo:RO_0002176) obo:RO_0002176) obo:RO_0002170) From 2998a248f7ad45be5ad36f4e1b3a6c71bca192b9 Mon Sep 17 00:00:00 2001 From: Clare72 Date: Fri, 18 Aug 2023 12:55:04 +0100 Subject: [PATCH 4/6] amend creation annotations --- src/ontology/ro-edit.owl | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/ontology/ro-edit.owl b/src/ontology/ro-edit.owl index c52cdc45..de75ed15 100644 --- a/src/ontology/ro-edit.owl +++ b/src/ontology/ro-edit.owl @@ -6356,8 +6356,8 @@ SubObjectPropertyOf(obo:RO_0013009 obo:RO_0002120) AnnotationAssertion(obo:IAO_0000112 obo:RO_0013010 "An optic lobe intrinsic neuron has its synapses restricted to optic lobe neuropil.") AnnotationAssertion(obo:IAO_0000115 obo:RO_0013010 "A relationship between a neuron and a region, where the neuron has essentially all of its synapses in that region.") -AnnotationAssertion(dc:contributor obo:RO_0013010 ) -AnnotationAssertion(dc:date obo:RO_0013010 "2023-08-17T12:17:24Z"^^xsd:dateTime) +AnnotationAssertion(terms:creator obo:RO_0013010 ) +AnnotationAssertion(terms:date obo:RO_0013010 "2023-08-17T12:17:24Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:RO_0013010 "intrinsic to") AnnotationAssertion(rdfs:comment obo:RO_0013010 "Relationship may still be used if a very small number of synapses fall slightly outside the boundaries of the region.") AnnotationAssertion(rdfs:label obo:RO_0013010 "synapses restricted to region"@en) From 1a2743dff7b49ad1baf582cf73c78c7fc12485f0 Mon Sep 17 00:00:00 2001 From: Clare72 Date: Tue, 12 Sep 2023 10:46:10 +0100 Subject: [PATCH 5/6] making requested definition and comment fixes --- src/ontology/ro-edit.owl | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/ontology/ro-edit.owl b/src/ontology/ro-edit.owl index 2d6148d6..a617917a 100644 --- a/src/ontology/ro-edit.owl +++ b/src/ontology/ro-edit.owl @@ -6347,11 +6347,11 @@ SubObjectPropertyOf(obo:RO_0013009 obo:RO_0002120) # Object Property: obo:RO_0013010 (synapses restricted to region) AnnotationAssertion(obo:IAO_0000112 obo:RO_0013010 "An optic lobe intrinsic neuron has its synapses restricted to optic lobe neuropil.") -AnnotationAssertion(obo:IAO_0000115 obo:RO_0013010 "A relationship between a neuron and a region, where the neuron has essentially all of its synapses in that region.") +AnnotationAssertion(obo:IAO_0000115 obo:RO_0013010 "A relationship between a neuron and a region, where all of the functionally relevant input and output synapses are in that region.") AnnotationAssertion(terms:creator obo:RO_0013010 ) AnnotationAssertion(terms:date obo:RO_0013010 "2023-08-17T12:17:24Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:RO_0013010 "intrinsic to") -AnnotationAssertion(rdfs:comment obo:RO_0013010 "Relationship may still be used if a very small number of synapses fall slightly outside the boundaries of the region.") +AnnotationAssertion(rdfs:comment obo:RO_0013010 "This relation may still be used if a very small number of synapses fall slightly outside the boundaries of the region, but any class using this relation should not have another restriction using this relation to another non-overlapping region.") AnnotationAssertion(rdfs:label obo:RO_0013010 "synapses restricted to region"@en) SubObjectPropertyOf(obo:RO_0013010 obo:RO_0013001) From bca379389d11b3fdb07bb59ad4f510a1f47eefd3 Mon Sep 17 00:00:00 2001 From: Anita Caron Date: Fri, 9 Feb 2024 09:49:00 +0000 Subject: [PATCH 6/6] use `terms:contributor` instead of `terms:creator` --- src/ontology/ro-edit.owl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/ro-edit.owl b/src/ontology/ro-edit.owl index 8c385260..5431a943 100644 --- a/src/ontology/ro-edit.owl +++ b/src/ontology/ro-edit.owl @@ -6400,7 +6400,7 @@ SubObjectPropertyOf(obo:RO_0013009 obo:RO_0002120) AnnotationAssertion(obo:IAO_0000112 obo:RO_0013010 "An optic lobe intrinsic neuron has its synapses restricted to optic lobe neuropil.") AnnotationAssertion(obo:IAO_0000115 obo:RO_0013010 "A relationship between a neuron and a region, where all of the functionally relevant input and output synapses are in that region.") -AnnotationAssertion(terms:creator obo:RO_0013010 ) +AnnotationAssertion(terms:contributor obo:RO_0013010 ) AnnotationAssertion(terms:date obo:RO_0013010 "2023-08-17T12:17:24Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:RO_0013010 "intrinsic to") AnnotationAssertion(rdfs:comment obo:RO_0013010 "This relation may still be used if a very small number of synapses fall slightly outside the boundaries of the region, but any class using this relation should not have another restriction using this relation to another non-overlapping region.")