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pombase / fypo

Fission Yeast Phenotype Ontology
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‘closes #4524

Closed ValWood closed 2 months ago

github-actions[bot] commented 2 months ago

Changes added to the edit file this PR

Click to expand # Ontology comparison ## Left - Ontology IRI: `http://purl.obolibrary.org/obo/fypo.owl` - Version IRI: *None* - Loaded from: `file:/__w/fypo/fypo/master/src/ontology/fypo-edit.owl` ## Right - Ontology IRI: `http://purl.obolibrary.org/obo/fypo.owl` - Version IRI: *None* - Loaded from: `file:/__w/fypo/fypo/src/ontology/fypo-edit.owl` ### Ontology imports ### Ontology annotations ### abolished histone H4 binding `http://purl.obolibrary.org/obo/FYPO_0008187` #### Added - [abolished histone H4 binding](http://purl.obolibrary.org/obo/FYPO_0008187) [creation_date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-04-09T05:46:05Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - [abolished histone H4 binding](http://purl.obolibrary.org/obo/FYPO_0008187) [label](http://www.w3.org/2000/01/rdf-schema#label) "abolished histone H4 binding"@en - [abolished histone H4 binding](http://purl.obolibrary.org/obo/FYPO_0008187) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A molecular function phenotype in which occurrence of histone H4 binding by a gene product (usually a protein) in a mutant does not occur. The affected gene product may be encoded by the mutated gene, or by a different gene." - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:38285941" - [abolished histone H4 binding](http://purl.obolibrary.org/obo/FYPO_0008187) [created_by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - Class: [abolished histone H4 binding](http://purl.obolibrary.org/obo/FYPO_0008187) - [abolished histone H4 binding](http://purl.obolibrary.org/obo/FYPO_0008187) SubClassOf [abnormal histone binding](http://purl.obolibrary.org/obo/FYPO_0007157) ### decreased reticulophagy during cellular response to endoplasmic reticulum stress `http://purl.obolibrary.org/obo/FYPO_0007446` #### Removed - [decreased reticulophagy during cellular response to endoplasmic reticulum stress](http://purl.obolibrary.org/obo/FYPO_0007446) SubClassOf [abnormal reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0007445) #### Added - [decreased reticulophagy during cellular response to endoplasmic reticulum stress](http://purl.obolibrary.org/obo/FYPO_0007446) SubClassOf [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) ### decreased reticulophagy during vegetative growth `http://purl.obolibrary.org/obo/FYPO_0008197` #### Added - [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which autophagic degradation of the endoplasmic reticulum occurs to a lower extent than normal." - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37553386" - [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) [creation_date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-04-09T05:56:10Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) [created_by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) [label](http://www.w3.org/2000/01/rdf-schema#label) "decreased reticulophagy during vegetative growth"@en - Class: [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) - [decreased reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0008197) SubClassOf [abnormal reticulophagy during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0007445) ### increased protein localization to chromatin at centromere central core during meiotic prophase I `http://purl.obolibrary.org/obo/FYPO_0008190` #### Removed - [increased protein localization to chromatin at centromere central core during meiotic prophase I](http://purl.obolibrary.org/obo/FYPO_0008190) [comment](http://www.w3.org/2000/01/rdf-schema#comment) "A cell phenotype in which the localization of a protein to chromatin at the centromere central core is increased during the meiotic prophase I." #### Added - [increased protein localization to chromatin at centromere central core during meiotic prophase I](http://purl.obolibrary.org/obo/FYPO_0008190) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cell phenotype in which the localization of a protein to chromatin at the centromere central core is increased during the meiotic prophase I." ### normal replication fork arrest `http://purl.obolibrary.org/obo/FYPO_0008191` #### Added - [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) [created_by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) [creation_date](http://www.geneontology.org/formats/oboInOwl#creation_date) "2024-04-09T05:49:10Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) [label](http://www.w3.org/2000/01/rdf-schema#label) "normal replication fork arrest"@en - [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which replication fork arrest at a natural replication barrier is normal (i.e. indistinguishable from wild type)." - Class: [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) - [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) EquivalentTo [has part](http://purl.obolibrary.org/obo/BFO_0000051) some ([quality](http://purl.obolibrary.org/obo/PATO_0000001) and ([happens_during](http://purl.obolibrary.org/obo/GOREL_0000001) some [single-celled organism vegetative growth phase](http://purl.obolibrary.org/obo/GO_0072690)) and ([characteristic of](http://purl.obolibrary.org/obo/RO_0000052) some [replication fork arrest](http://purl.obolibrary.org/obo/GO_0043111)) and ([has modifier](http://purl.obolibrary.org/obo/RO_0002573) some [normal](http://purl.obolibrary.org/obo/PATO_0000461))) - [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) SubClassOf [normal cellular process during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0001319) ### normal replication fork arrest at mating-type locus `http://purl.obolibrary.org/obo/FYPO_0005353` #### Removed - [normal replication fork arrest at mating-type locus](http://purl.obolibrary.org/obo/FYPO_0005353) SubClassOf [normal cellular process during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0001319) #### Added - [normal replication fork arrest at mating-type locus](http://purl.obolibrary.org/obo/FYPO_0005353) SubClassOf [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191) ### normal replication fork arrest at rDNA repeats `http://purl.obolibrary.org/obo/FYPO_0007205` #### Removed - [normal replication fork arrest at rDNA repeats](http://purl.obolibrary.org/obo/FYPO_0007205) SubClassOf [normal cellular process during vegetative growth](http://purl.obolibrary.org/obo/FYPO_0001319) #### Added - [normal replication fork arrest at rDNA repeats](http://purl.obolibrary.org/obo/FYPO_0007205) SubClassOf [normal replication fork arrest](http://purl.obolibrary.org/obo/FYPO_0008191)
# Changes to ontology after reasoner runs
Click to expand Coming soon >
# Errors reported ``` Level Rule Name Subject Property Value WARN missing_definition output_of definition WARN missing_definition preceded_by definition WARN missing_definition precedes definition INFO lowercase_definition has_output definition p has output c if either: p has direct output c or p has output input c. Implies that if p happens, c always ensues. INFO missing_superclass phenotype rdfs:subClassOf ```