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pombase / fypo

Fission Yeast Phenotype Ontology
Creative Commons Attribution 4.0 International
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closes mutiple #4443

Closed ValWood closed 7 months ago

github-actions[bot] commented 7 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 ### abnormal mitochondrial genome maintenance `http://purl.obolibrary.org/obo/FYPO_0000490` #### Removed - [abnormal mitochondrial genome maintenance](http://purl.obolibrary.org/obo/FYPO_0000490) [has_exact_synonym](http://www.geneontology.org/formats/oboInOwl#hasExactSynonym) "abnormal mitochondrial genome maintenance during vegetative growth" - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PomBase:mah" - [abnormal mitochondrial genome maintenance](http://purl.obolibrary.org/obo/FYPO_0000490) [has_related_synonym](http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym) "abnormal mitochondrial genome maintenance during mitotic cell cycle" - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PomBase:mah" #### Added - [abnormal mitochondrial genome maintenance](http://purl.obolibrary.org/obo/FYPO_0000490) [has_narrow_synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "mitochondrial DNA depletion" - [abnormal mitochondrial genome maintenance](http://purl.obolibrary.org/obo/FYPO_0000490) [has_narrow_synonym](http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym) "loss of mitochondrial DNA" ### decreased cell population growth during glucose starvation `http://purl.obolibrary.org/obo/FYPO_0003743` #### Removed - [decreased cell population growth during glucose starvation](http://purl.obolibrary.org/obo/FYPO_0003743) EquivalentTo [has part](http://purl.obolibrary.org/obo/BFO_0000051) some ([decreased cell population growth](http://purl.obolibrary.org/obo/FYPO_0000046) and ([happens_during](http://purl.obolibrary.org/obo/GOREL_0000001) some [cellular response to glucose starvation](http://purl.obolibrary.org/obo/GO_0042149))) - [decreased cell population growth during glucose starvation](http://purl.obolibrary.org/obo/FYPO_0003743) SubClassOf [decreased cell population growth](http://purl.obolibrary.org/obo/FYPO_0000046) #### Added - [decreased cell population growth during glucose starvation](http://purl.obolibrary.org/obo/FYPO_0003743) EquivalentTo [has part](http://purl.obolibrary.org/obo/BFO_0000051) some ([decreased vegetative cell population growth](http://purl.obolibrary.org/obo/FYPO_0001355) and ([happens_during](http://purl.obolibrary.org/obo/GOREL_0000001) some [cellular response to glucose starvation](http://purl.obolibrary.org/obo/GO_0042149))) - [decreased cell population growth during glucose starvation](http://purl.obolibrary.org/obo/FYPO_0003743) SubClassOf [decreased vegetative cell population growth](http://purl.obolibrary.org/obo/FYPO_0001355) ### decreased vegetative cell population growth on low glucose `http://purl.obolibrary.org/obo/FYPO_0008128` #### Removed - [decreased vegetative cell population growth on low glucose](http://purl.obolibrary.org/obo/FYPO_0008128) [label](http://www.w3.org/2000/01/rdf-schema#label) "decreased vegetative population growth on low glucose"@en #### Added - [decreased vegetative cell population growth on low glucose](http://purl.obolibrary.org/obo/FYPO_0008128) [label](http://www.w3.org/2000/01/rdf-schema#label) "decreased vegetative cell population growth on low glucose"@en ### normal stop codon readthrough `http://purl.obolibrary.org/obo/FYPO_0008136` #### Added - [normal stop codon readthrough](http://purl.obolibrary.org/obo/FYPO_0008136) [definition](http://purl.obolibrary.org/obo/IAO_0000115) "A metabolism phenotype observed in the vegetative growth phase of the life cycle in which translational readthough of a stop codon is normal (i.e. indistinguishable from wild-type) during cytoplasmic translation." - [database_cross_reference](http://www.geneontology.org/formats/oboInOwl#hasDbXref) "PMID:37805140" - [normal stop codon readthrough](http://purl.obolibrary.org/obo/FYPO_0008136) [created_by](http://www.geneontology.org/formats/oboInOwl#created_by) "vw" - [normal stop codon readthrough](http://purl.obolibrary.org/obo/FYPO_0008136) [label](http://www.w3.org/2000/01/rdf-schema#label) "normal stop codon readthrough"@en - [normal stop codon readthrough](http://purl.obolibrary.org/obo/FYPO_0008136) [creation_dat](http://www.geneontology.org/formats/oboInOwl#creation_dat) "2023-11-10T16:13:10Z"^^[dateTime](http://www.w3.org/2001/XMLSchema#dateTime) - Class: [normal stop codon readthrough](http://purl.obolibrary.org/obo/FYPO_0008136) - [normal stop codon readthrough](http://purl.obolibrary.org/obo/FYPO_0008136) SubClassOf [normal cellular process](http://purl.obolibrary.org/obo/FYPO_0000627)
# 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 ```