diff --git a/external-dev/aopo-slim.owl b/external-dev/aopo-slim.owl
index 2a75ffc6..68d7e2a7 100644
--- a/external-dev/aopo-slim.owl
+++ b/external-dev/aopo-slim.owl
@@ -44,7 +44,7 @@
https://raw.githubusercontent.com/jmillanacosta/aop-ontology/patch-1/aopo.owl
Slimmer
- 2024-09-01 01:57:59
+ 2024-10-01 01:58:38
27:07:2024 19:59
chebi_ontology
human_phenotype
diff --git a/external-dev/bao-slim.owl b/external-dev/bao-slim.owl
index d6560633..1a6f6b56 100644
--- a/external-dev/bao-slim.owl
+++ b/external-dev/bao-slim.owl
@@ -24,7 +24,7 @@
http://bioassayontology.org/bao/bao_complete_merged.owl
Slimmer
- 2024-09-01 01:58:07
+ 2024-10-01 01:58:46
Contact:
Stephan Schurer
stephan dot schurer at gmail dot com
diff --git a/external-dev/bfo-slim.owl b/external-dev/bfo-slim.owl
index 205256f2..f16be65b 100644
--- a/external-dev/bfo-slim.owl
+++ b/external-dev/bfo-slim.owl
@@ -45,7 +45,7 @@
http://purl.obolibrary.org/obo/bfo/classes-only.owl
Slimmer
- 2024-09-01 01:58:09
+ 2024-10-01 01:58:49
The http://purl.obolibary.org/obo/bfo/classes-only.owl variant of BFO ("bfo_classes_only.owl") includes only the class hierarchy and annotations from the full OWL version of BFO 2: http://purl.obolibary.org/obo/bfo.owl ("bfo.owl"). There are no object properties or logical axioms that use the object properties in bfo_classes_only.owl. As the logical axioms in the bfo_classes_only.owl variant are limited to subclass and disjoint assertions they are much weaker than the logical axioms in bfo.owl.
If you plan to use the relations that define BFO 2, you should import bfo.owl instead of bfo_classes_only.owl. To the extent that the relations are used without importing bfo.owl, be mindful that they should be used in a manner consistent with their use in bfo.owl. Otherwise if your ontology is imported by a another ontology that imports bfo.owl there may be inconsistencies.
diff --git a/external-dev/bto-slim.owl b/external-dev/bto-slim.owl
index 4dd124da..40eba6a6 100644
--- a/external-dev/bto-slim.owl
+++ b/external-dev/bto-slim.owl
@@ -20,7 +20,7 @@
http://purl.obolibrary.org/obo/bto.owl
OBO-Edit 2.3.1
Slimmer
- 2024-09-01 01:58:14
+ 2024-10-01 01:58:53
23:10:2021 16:56
BrendaTissueOBO
1.2
diff --git a/external-dev/ccont-slim.owl b/external-dev/ccont-slim.owl
index 1297e4ab..1f2b80af 100644
--- a/external-dev/ccont-slim.owl
+++ b/external-dev/ccont-slim.owl
@@ -15,7 +15,7 @@
https://raw.githubusercontent.com/enanomapper/ontologies/master/internal/ccont-ext.owl
Matthias Ganzinger, matthias.ganzinger@med.uni-heidelberg.de
Slimmer
- 2024-09-01 01:58:15
+ 2024-10-01 01:58:55
cell culture ontology (CCONT)
1.1
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/chebi-slim.owl b/external-dev/chebi-slim.owl
index c8761ef2..4372c2f6 100644
--- a/external-dev/chebi-slim.owl
+++ b/external-dev/chebi-slim.owl
@@ -17,7 +17,7 @@
http://ftp.ebi.ac.uk/pub/databases/chebi/ontology/chebi_lite.obo
Slimmer
- 2024-09-01 01:59:54
+ 2024-10-01 01:59:39
27:07:2024 19:59
chebi_ontology
1.2
diff --git a/external-dev/cheminf-slim.owl b/external-dev/cheminf-slim.owl
index 936562b2..be1df9e4 100644
--- a/external-dev/cheminf-slim.owl
+++ b/external-dev/cheminf-slim.owl
@@ -80,7 +80,7 @@
http://creativecommons.org/publicdomain/zero/1.0/
http://semanticchemistry.github.io/semanticchemistry/ontology/cheminf.owl
Slimmer
- 2024-09-01 01:58:18
+ 2024-10-01 01:58:58
An information artifact is, loosely, a dependent continuant or its bearer that is created as the result of one or more intentional processes. Examples: uniprot, the english language, the contents of this document or a printout of it, the temperature measurements from a weather balloon. For more information, see the project home page at https://github.com/information-artifact-ontology/IAO
Document containing upporting external terms
IDs allocated to related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS: IAO_0021000-IAO_0021999
diff --git a/external-dev/chmo-slim.owl b/external-dev/chmo-slim.owl
index 8dfdeab3..764f91c5 100644
--- a/external-dev/chmo-slim.owl
+++ b/external-dev/chmo-slim.owl
@@ -19,7 +19,7 @@
http://purl.obolibrary.org/obo/chmo.owl
Slimmer
- 2024-09-01 01:59:59
+ 2024-10-01 01:59:45
1.2
batchelorc
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/clo-slim.owl b/external-dev/clo-slim.owl
index 4a023cc0..b9a846e3 100644
--- a/external-dev/clo-slim.owl
+++ b/external-dev/clo-slim.owl
@@ -39,9 +39,9 @@
http://purl.obolibrary.org/obo/cl.owl
Slimmer
- 2024-09-01 02:00:11
+ 2024-10-01 01:59:58
See PMID:15693950, PMID:12799354, PMID:20123131, PMID:21208450; Contact Alexander Diehl, addiehl@buffalo.edu, university at buffalo.
- 2024-08-16
+ 2024-09-26
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
@@ -431,6 +431,15 @@ WHERE {
+
+
+
+
+
+
+
+
+
@@ -1159,6 +1168,13 @@ WHERE {
+
+
+
+
+
+
+
@@ -1217,18 +1233,14 @@ WHERE {
-
- created by
-
+
-
- creation date
-
+
@@ -1330,9 +1342,7 @@ WHERE {
-
- id
-
+
@@ -1623,7 +1633,6 @@ WHERE {
-
A connective tissue cell found in bone.
diff --git a/external-dev/efo-slim.owl b/external-dev/efo-slim.owl
index e8f7638d..41b41160 100644
--- a/external-dev/efo-slim.owl
+++ b/external-dev/efo-slim.owl
@@ -55,9 +55,9 @@ License.
www.apache.org/licenses/LICENSE-2.0
http://www.ebi.ac.uk/efo/efo.owl
Slimmer
- 2024-09-01 02:01:08
- 2024-08-15
- 3.69.0
+ 2024-10-01 02:01:22
+ 2024-09-16
+ 3.70.0
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
@@ -61221,7 +61221,6 @@ of diseased coronary vessels at the time of a catheterization procedure. The var
Annalisa Buniello
true
PMID:33067605
- EGF
epidermal growth factor measurement
diff --git a/external-dev/envo-slim.owl b/external-dev/envo-slim.owl
index 38c161a8..03b166df 100644
--- a/external-dev/envo-slim.owl
+++ b/external-dev/envo-slim.owl
@@ -35,7 +35,7 @@
https://github.com/EnvironmentOntology/envo/
https://github.com/EnvironmentOntology/envo/issues/
Slimmer
- 2024-09-01 02:01:15
+ 2024-10-01 02:01:29
ENVO
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/chemical_concentration.owl>) VersionIRI(<null>))) [Axioms: 679 Logical Axioms: 119]
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/entity_attribute.owl>) VersionIRI(<null>))) [Axioms: 206 Logical Axioms: 34]
diff --git a/external-dev/fabio-slim.owl b/external-dev/fabio-slim.owl
index c54ba84d..bf111e8b 100644
--- a/external-dev/fabio-slim.owl
+++ b/external-dev/fabio-slim.owl
@@ -33,7 +33,7 @@ FaBiO classes are structured according to the FRBR schema of Works, Expressions,
fabio
http://purl.org/spar/fabio/
Slimmer
- 2024-09-01 02:01:21
+ 2024-10-01 02:01:33
FaBiO, the FRBR-aligned Bibliographic Ontology, is an ontology for recording and publishing on the Semantic Web bibliographic records of scholarly endeavours. It forms part of SPAR, a suite of Semantic Publishing and Referencing Ontologies. Other SPAR ontologies are described at http://purl.org/spar/.
This ontology is available at http://purl.org/spar/fabio, and uses the namespace prefix fabio.
diff --git a/external-dev/go-slim.owl b/external-dev/go-slim.owl
index 29bb2425..d2f2c339 100644
--- a/external-dev/go-slim.owl
+++ b/external-dev/go-slim.owl
@@ -13,7 +13,6 @@
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:ncicp="http://ncicb.nci.nih.gov/xml/owl/EVS/ComplexProperties.xsd#"
xmlns:terms="http://purl.org/dc/terms/"
- xmlns:terms2="http://www.geneontology.org/formats/oboInOwl#http://purl.org/dc/terms/"
xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
@@ -24,10 +23,10 @@
http://purl.obolibrary.org/obo/go.owl
Slimmer
- 2024-09-01 02:01:44
+ 2024-10-01 02:01:57
gene_ontology
1.2
- 2024-06-17
+ 2024-09-08
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
@@ -599,13 +598,6 @@
-
-
-
-
-
-
-
@@ -867,7 +859,7 @@
activation of metacaspase activity
biological_process
GO:0006919
-
+
This term should be used when the annotation refers to a process that occurs in a context of apoptotic cell death. To annotate gene products involved in activation of cysteine-type endopeptidases in other cellular process (e.g., cell cycle arrest) that do not necessarily develop into an apoptotic process, please use the more general parent term GO:0097202. Examples of 'activation of cysteine-type endopeptidase activity involved in apoptotic process' are cytochrome c and Apaf1. When cytochrome c is released from mitochondria and forms a complex with Apaf1, they form a scaffolding platform in which the pro-caspase 9 is bound (the 'apoptosome'). The caspase is then cleaved and activated. Cytochrome c and Apaf1 are therefore involved in the conversion of the zymogen procaspase 9 to the active form of the caspase.
activation of cysteine-type endopeptidase activity involved in apoptotic process
@@ -1081,7 +1073,7 @@
activation of caspase activity by cytochrome c
biological_process
GO:0008635
-
+
activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c
@@ -2530,7 +2522,7 @@
inhibition of caspase activity
biological_process
GO:0043154
-
+
negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
@@ -2587,7 +2579,7 @@
stimulation of caspase activity
biological_process
GO:0043280
-
+
positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
@@ -2611,7 +2603,7 @@
regulation of caspase activation
biological_process
GO:0043281
-
+
regulation of cysteine-type endopeptidase activity involved in apoptotic process
@@ -2695,25 +2687,6 @@
-
-
-
-
-
- Any process that modulates the frequency, rate or extent of the transfer of one or more phosphate groups to an actin molecule.
- biological_process
- GO:0043538
- regulation of actin phosphorylation
-
-
-
-
- Any process that modulates the frequency, rate or extent of the transfer of one or more phosphate groups to an actin molecule.
- GOC:go_curators
-
-
-
-
@@ -3906,7 +3879,7 @@
activation of initiator caspase activity
biological_process
GO:0097296
-
+
Components of the DISC (death-inducing signaling complex) may be annotated to this term. These include ligand-bound receptors such as FAS/CD95 (though care should be taken because FAS can also act as a non-apoptotic signal transducer), and signaling molecules such as FADD (FAS-associated protein with a death domain), cIAPs (cellular inhibitor of apoptosis proteins), c-FLIPs and caspases 8 and 10. Note that GO:0097296 should only be used to annotate gene products directly involved in the initiation or start up of an inactive cysteine-type endopeptidase activity involved in the apoptotic signaling pathway (also known as an initiator caspase). If the evidence provided is not sufficient to account for direct activation of this enzymatic activity, consider using the more generic terms GO:2001269 positive regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway or GO:0043280 positive regulation of cysteine-type endopeptidase activity involved in apoptotic process.
activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway
@@ -8708,7 +8681,7 @@
2012-12-05T15:42:50Z
biological_process
GO:1990001
-
+
inhibition of cysteine-type endopeptidase activity involved in apoptotic process
@@ -9226,7 +9199,7 @@
regulation of initiator caspase activity
biological_process
GO:2001267
-
+
regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway
@@ -9263,7 +9236,7 @@
negative regulation of initiator caspase activity
biological_process
GO:2001268
-
+
negative regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway
@@ -9300,7 +9273,7 @@
positive regulation of initiator caspase activity
biological_process
GO:2001269
-
+
positive regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway
@@ -9335,7 +9308,7 @@
regulation of effector caspase activity
biological_process
GO:2001270
-
+
regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis
@@ -9365,7 +9338,7 @@
negative regulation of effector caspase activity
biological_process
GO:2001271
-
+
negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis
@@ -9395,7 +9368,7 @@
positive regulation of effector caspase activity
biological_process
GO:2001272
-
+
positive regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis
@@ -9974,6 +9947,20 @@
results_in_fusion_of
results in fusion of
+
+ RO:0012013
+ external
+ positively_regulates_in_another_organism
+ positively_regulates_in_another_organism
+ positively regulates in another organism
+
+
+ RO:0012014
+ external
+ negatively_regulates_in_another_organism
+ negatively_regulates_in_another_organism
+ negatively regulates in another organism
+
RO:0019000
gene_ontology
diff --git a/external-dev/iao-slim.owl b/external-dev/iao-slim.owl
index dded6a98..25a135a5 100644
--- a/external-dev/iao-slim.owl
+++ b/external-dev/iao-slim.owl
@@ -57,7 +57,7 @@
http://purl.obolibrary.org/obo/iao.owl
Slimmer
- 2024-09-01 02:01:46
+ 2024-10-01 02:01:59
An information artifact is, loosely, a dependent continuant or its bearer that is created as the result of one or more intentional processes. Examples: uniprot, the english language, the contents of this document or a printout of it, the temperature measurements from a weather balloon. For more information, see the project home page at https://github.com/information-artifact-ontology/IAO
IDs allocated to related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS: IAO_0021000-IAO_0021999
IDs allocated to subdomains of IAO. pno.owl: IAO_0020000-IAO_0020999, d-acts.owl: IAO_0021000-IAO_0021999
diff --git a/external-dev/msio-slim.owl b/external-dev/msio-slim.owl
index eba0de45..3ac4ad65 100644
--- a/external-dev/msio-slim.owl
+++ b/external-dev/msio-slim.owl
@@ -181,7 +181,7 @@ http://www.cosmos-fp7.eu/WP2
Slimmer
Daniel Schober
2017-10-19T10:11:26Z
- 2024-09-01 02:04:55
+ 2024-10-01 02:05:11
Please see the project site https://github.com/BFO-ontology/BFO, the bfo2 owl discussion group http://groups.google.com/group/bfo-owl-devel, the bfo2 discussion group http://groups.google.com/group/bfo-devel, the tracking google doc http://goo.gl/IlrEE, and the current version of the bfo2 reference http://purl.obolibrary.org/obo/bfo/dev/bfo2-reference.docx. This ontology is generated from a specification at https://github.com/BFO-ontology/BFO/tree/master/src/ontology/owl-group/specification/ and with the code that generates the OWL version in https://github.com/BFO-ontology/BFO/tree/master/src/tools/. A very early version of BFO version 2 in CLIF is at http://purl.obolibrary.org/obo/bfo/dev/bfo.clif.
The BSD license on the BFO project site refers to code used to build BFO.
This version (1.1.0) uses the Basic Formal Ontology (BFO) as its top level ontology. We might at some point close the resulting semantic gap by using OBI and IAO as intermediate bridges.
diff --git a/external-dev/ncit-slim.owl b/external-dev/ncit-slim.owl
index 0c2783d1..c12551eb 100644
--- a/external-dev/ncit-slim.owl
+++ b/external-dev/ncit-slim.owl
@@ -21,7 +21,7 @@
NCI Thesaurus OBO Edition
http://purl.obolibrary.org/obo/ncit.owl
Slimmer
- 2024-09-01 02:04:01
+ 2024-10-01 02:04:15
NCI Thesaurus, a controlled vocabulary in support of NCI administrative and scientific activities. Produced by the Enterprise Vocabulary System (EVS), a project by the NCI Center for Biomedical Informatics and Information Technology. National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, U.S.A.
24.04e
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/npo-slim.owl b/external-dev/npo-slim.owl
index 54431135..1c8ce456 100644
--- a/external-dev/npo-slim.owl
+++ b/external-dev/npo-slim.owl
@@ -17,7 +17,7 @@
http://purl.bioontology.org/ontology/npo
https://raw.githubusercontent.com/enanomapper/npo/master/npo-inferred.owl
Slimmer
- 2024-09-01 02:04:06
+ 2024-10-01 02:04:20
Inferred version created with Pellet reasoner in Protege editor (v. 4.1)
The NPO was primarily developed by Dennis G. Thomas in collaboration with Nathan A. Baker and Rohit V. Pappu. This development was supported by the NIH through grants U54 CA119342 and U54 HG004028.
2013-05-31 (yyyy-mm-dd)
diff --git a/external-dev/oae-slim.owl b/external-dev/oae-slim.owl
index e01afac9..96978170 100644
--- a/external-dev/oae-slim.owl
+++ b/external-dev/oae-slim.owl
@@ -58,7 +58,7 @@
OAE: Ontology of Adverse Events
http://purl.obolibrary.org/obo/oae.owl
Slimmer
- 2024-09-01 02:04:13
+ 2024-10-01 02:04:27
1.2.47
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/obcs-slim.owl b/external-dev/obcs-slim.owl
index 3f846253..38653f57 100644
--- a/external-dev/obcs-slim.owl
+++ b/external-dev/obcs-slim.owl
@@ -37,7 +37,7 @@
http://purl.obolibrary.org/obo/obcs.owl
Slimmer
- 2024-09-01 02:04:17
+ 2024-10-01 02:04:31
2023-12-08
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/obi-slim.owl b/external-dev/obi-slim.owl
index fe8ca9e6..27a7e61a 100644
--- a/external-dev/obi-slim.owl
+++ b/external-dev/obi-slim.owl
@@ -82,7 +82,7 @@
Ontology for Biomedical Investigations
http://purl.obolibrary.org/obo/obi.owl
Slimmer
- 2024-09-01 02:04:22
+ 2024-10-01 02:04:36
Please cite the OBI consortium http://purl.obolibrary.org/obo/obi where traditional citation is called for. However it is adequate that individual terms be attributed simply by use of the identifying PURL for the term, in projects that refer to them.
2024-06-10
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/pato-slim.owl b/external-dev/pato-slim.owl
index c2c493dd..ce7d721e 100644
--- a/external-dev/pato-slim.owl
+++ b/external-dev/pato-slim.owl
@@ -4,34 +4,24 @@
xmlns:cl="http://purl.obolibrary.org/obo/cl#"
xmlns:dc="http://purl.org/dc/elements/1.1/"
xmlns:go="http://purl.obolibrary.org/obo/go#"
- xmlns:pr="http://purl.obolibrary.org/obo/pr#"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:pav="http://purl.org/pav/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:xml="http://www.w3.org/XML/1998/namespace"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:cito="http://purl.org/spar/cito/"
xmlns:core="http://purl.obolibrary.org/obo/uberon/core#"
xmlns:foaf="http://xmlns.com/foaf/0.1/"
- xmlns:obo1="http://www.geneontology.org/formats/oboInOwl#http://purl.obolibrary.org/obo/"
xmlns:pato="http://purl.obolibrary.org/obo/pato#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:skos="http://www.w3.org/2004/02/skos/core#"
- xmlns:chebi="http://purl.obolibrary.org/obo/chebi/"
+ xmlns:chebi="http://purl.obolibrary.org/obo/chebi#1"
xmlns:ncicp="http://ncicb.nci.nih.gov/xml/owl/EVS/ComplexProperties.xsd#"
- xmlns:sssom="https://w3id.org/sssom/"
- xmlns:swrla="http://swrl.stanford.edu/ontologies/3.3/swrla.owl#"
xmlns:terms="http://purl.org/dc/terms/"
- xmlns:vocab="https://w3id.org/semapv/vocab/"
- xmlns:chebi2="http://purl.obolibrary.org/obo/chebi#"
- xmlns:chebi3="http://purl.obolibrary.org/obo/chebi#1"
- xmlns:chebi4="http://purl.obolibrary.org/obo/chebi#3"
- xmlns:chebi5="http://purl.obolibrary.org/obo/chebi#2"
+ xmlns:chebi1="http://purl.obolibrary.org/obo/chebi#3"
+ xmlns:chebi2="http://purl.obolibrary.org/obo/chebi#2"
xmlns:ubprop="http://purl.obolibrary.org/obo/ubprop#"
xmlns:subsets="http://purl.obolibrary.org/obo/ro/subsets#"
- xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"
- xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#">
+ xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
An ontology of phenotypic qualities (properties, attributes or characteristics).
@@ -39,10 +29,10 @@
http://purl.obolibrary.org/obo/pato.owl
Slimmer
- 2024-09-01 02:04:30
+ 2024-10-01 02:04:45
quality
1.2
- 2024-03-28
+ 2024-09-04
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
@@ -60,27 +50,6 @@
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
@@ -90,34 +59,6 @@
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
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- If R <- P o Q is a defining property chain axiom, then it also holds that R -> P o Q. Note that this cannot be expressed directly in OWL
- is a defining property chain axiom
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- If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R.
- is a defining property chain axiom where second argument is reflexive
-
-
-
-
- 'anterior end of organism' is-opposite-of 'posterior end of organism'
- 'increase in temperature' is-opposite-of 'decrease in temperature'
x is the opposite of y if there exists some distance metric M, and there exists no z such as M(x,z) <= M(x,y) or M(y,z) <= M(y,x).
RO:0002604
quality
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- http://www.w3.org/2000/01/rdf-schema#seeAlso
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@@ -1919,11 +1090,19 @@
+ A quality of an entity that is descriptive or observational, typically not represented numerically.
quality
PATO:0000068
TODO: define this or obsolete it and move children somewhere else.
qualitative
+
+
+
+ A quality of an entity that is descriptive or observational, typically not represented numerically.
+ https://libguides.macalester.edu/c.php?g=527786&p=3608639
+ https://www.ncbi.nlm.nih.gov/books/NBK470395/
+
@@ -4572,7 +3751,6 @@
true
has_ontology_root_term
has ontology root term
- preferred_root
has_obo_format_version
diff --git a/external-dev/sio-slim.owl b/external-dev/sio-slim.owl
index 0c773ba2..4d47f502 100644
--- a/external-dev/sio-slim.owl
+++ b/external-dev/sio-slim.owl
@@ -80,7 +80,7 @@ mailing list: http://groups.google.com/group/sio-ontology
role chains:
'has capability' o 'is realized in' -> 'is participant in'
Slimmer
- 2024-09-01 02:04:32
+ 2024-10-01 02:04:47
http://sio.semanticscience.org
1.59
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.
diff --git a/external-dev/uberon-slim.owl b/external-dev/uberon-slim.owl
index 5b4ce46b..0e44f065 100644
--- a/external-dev/uberon-slim.owl
+++ b/external-dev/uberon-slim.owl
@@ -152,7 +152,7 @@
https://github.com/obophenotype/uberon/issues/
https://lists.sourceforge.net/lists/listinfo/obo-anatomy
Slimmer
- 2024-09-01 02:04:50
+ 2024-10-01 02:05:05
uberon
1.2
AEO
@@ -379,6 +379,13 @@ Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.
+
+
+
+
+
+
+
@@ -452,6 +459,29 @@ Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.
x never in taxon T if and only if T is a class, and x does not instantiate the class expression "in taxon some T". Note that this is a shortcut relation, and should be used as a hasValue restriction in OWL.
Class: <http://www.w3.org/2002/07/owl#Nothing> EquivalentTo: ?X and (RO_0002162 some ?Y)
Class: ?X DisjointWith: RO_0002162 some ?Y
+ PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
+PREFIX owl: <http://www.w3.org/2002/07/owl#>
+PREFIX in_taxon: <http://purl.obolibrary.org/obo/RO_0002162>
+PREFIX never_in_taxon: <http://purl.obolibrary.org/obo/RO_0002161>
+CONSTRUCT {
+ in_taxon: a owl:ObjectProperty .
+ ?x owl:disjointWith [
+ a owl:Restriction ;
+ owl:onProperty in_taxon: ;
+ owl:someValuesFrom ?taxon
+ ] .
+ ?x rdfs:subClassOf [
+ a owl:Restriction ;
+ owl:onProperty in_taxon: ;
+ owl:someValuesFrom [
+ a owl:Class ;
+ owl:complementOf ?taxon
+ ]
+ ] .
+}
+WHERE {
+ ?x never_in_taxon: ?taxon .
+}
RO:0002161
uberon
never_in_taxon
@@ -477,6 +507,25 @@ Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.
A is mutually_spatially_disjoint_with B if both A and B are classes, and there exists no p such that p is part_of some A and p is part_of some B.
Class: <http://www.w3.org/2002/07/owl#Nothing> EquivalentTo: (BFO_0000050 some ?X) and (BFO_0000050 some ?Y)
+ PREFIX owl: <http://www.w3.org/2002/07/owl#>
+PREFIX part_of: <http://purl.obolibrary.org/obo/BFO_0000050>
+PREFIX mutually_spatially_disjoint_with: <http://purl.obolibrary.org/obo/RO_0002171>
+CONSTRUCT {
+ part_of: a owl:ObjectProperty .
+ [
+ a owl:Restriction ;
+ owl:onProperty part_of: ;
+ owl:someValuesFrom ?x ;
+ owl:disjointWith [
+ a owl:Restriction ;
+ owl:onProperty part_of: ;
+ owl:someValuesFrom ?y
+ ]
+ ]
+}
+WHERE {
+ ?x mutually_spatially_disjoint_with: ?y .
+}
RO:0002171
uberon
mutually_spatially_disjoint_with
@@ -548,6 +597,30 @@ Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.
S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S
S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S.
+ PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
+PREFIX owl: <http://www.w3.org/2002/07/owl#>
+PREFIX in_taxon: <http://purl.obolibrary.org/obo/RO_0002162>
+PREFIX present_in_taxon: <http://purl.obolibrary.org/obo/RO_0002175>
+CONSTRUCT {
+ in_taxon: a owl:ObjectProperty .
+ ?witness rdfs:label ?label .
+ ?witness rdfs:subClassOf ?x .
+ ?witness rdfs:subClassOf [
+ a owl:Restriction ;
+ owl:onProperty in_taxon: ;
+ owl:someValuesFrom ?taxon
+ ] .
+}
+WHERE {
+ ?x present_in_taxon: ?taxon .
+ BIND(IRI(CONCAT(
+ "http://purl.obolibrary.org/obo/RO_0002175#",
+ MD5(STR(?x)),
+ "-",
+ MD5(STR(?taxon))
+ )) as ?witness)
+ BIND(CONCAT(STR(?x), " in taxon ", STR(?taxon)) AS ?label)
+}
RO:0002175
applicable for taxon
uberon
@@ -2297,13 +2370,6 @@ Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.
-
-
-
-
-
-
-
diff --git a/external-dev/uo-slim.owl b/external-dev/uo-slim.owl
index 694001f7..3c956ab9 100644
--- a/external-dev/uo-slim.owl
+++ b/external-dev/uo-slim.owl
@@ -12,7 +12,7 @@
http://purl.obolibrary.org/obo/uo.owl
Slimmer
- 2024-09-01 02:04:52
+ 2024-10-01 02:05:07
2023-05-25
This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer.