From 12680d25578193309a5fa9a5a705204cd9a21724 Mon Sep 17 00:00:00 2001 From: Val Wood Date: Thu, 4 Jul 2024 14:52:46 +0100 Subject: [PATCH] closes #4575; closes #4574; closes #4571; clocloses #4575ses #4570; closes #4568; closes #4567 closes #4549 --- src/ontology/fypo-edit.owl | 126 ++++++++++++++++++++++++++++++++++++- 1 file changed, 124 insertions(+), 2 deletions(-) diff --git a/src/ontology/fypo-edit.owl b/src/ontology/fypo-edit.owl index efda4a5b..5c28f8f5 100644 --- a/src/ontology/fypo-edit.owl +++ b/src/ontology/fypo-edit.owl @@ -8732,6 +8732,18 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -129304,7 +129316,7 @@ SubClassOf( (dihydrouridine absent from cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PomBase:vw") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the amount of dihydrouridine measured in a cell is too low to detect.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PomBase:vw") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the amount of dihydrouridine measured in a cell is too low to detect.") AnnotationAssertion( "vw253") AnnotationAssertion( "2022-01-20T19:01:40Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") @@ -129872,7 +129884,7 @@ SubClassOf( (decreased protein localization to pericentromeric region during meiosis I) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:18716626") Annotation(oboInOwl:hasDbXref "PomBase:mlr") "A cell phenotype observed during the first meiotic nuclear division in which the localization of a protein to chromatin at the pericentromeric regions is dicreased.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:18716626") Annotation(oboInOwl:hasDbXref "PomBase:mlr") "A cell phenotype observed during the first meiotic nuclear division in which the localization of a protein to chromatin at the pericentromeric regions is decreased.") AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") AnnotationAssertion(oboInOwl:id "FYPO:0007993") AnnotationAssertion(rdfs:label "decreased protein localization to pericentromeric region during meiosis I") @@ -132165,6 +132177,116 @@ AnnotationAssertion(oboInOwl:hasOBONamespace "increased histone H3-K4 acetylation at LTR during vegetative growth"@en) SubClassOf( ) +# Class: (decreased protein localization to cell surface) + +AnnotationAssertion( "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the cell surface is decreased. The cell surface refers to the external part of the cell wall and/or plasma membrane.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T12:54:09Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "decreased protein localization to cell surface"@en) +SubClassOf( ) + +# Class: (decreased protein localization to cell surface with increased localization to endosomal structures) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22848669") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the cell surface is decreased, and the localizatiion to the endosomal structure is increased. The cell surface refers to the external part of the cell wall and/or plasma membrane.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T12:56:18Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "decreased protein localization to cell surface with increased localization to endosomal structures"@en) +SubClassOf( ) + +# Class: (decreased protein localization to cell surface, protein mislocalized to endoplasmic reticulum) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22848669") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the cell surface is decreased, and the localizatiion to the endoplasmic reticulum is increased. The cell surface refers to the external part of the cell wall and/or plasma membrane.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T12:56:43Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "decreased protein localization to cell surface, protein mislocalized to endoplasmic reticulum"@en) +SubClassOf( ) + +# Class: (decreased cellular mannosylinositol phosphorylceramide level) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:20388730") "A cell phenotype in which the amount of annosylinositol phosphorylceramide measured in a cell is lower than normal when the cell is in the vegetative growth phase of the life cycle.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:03:22Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "decreased cellular mannosylinositol phosphorylceramide level"@en) +SubClassOf( ) + +# Class: (mannosylinositol phosphorylceramide absent from cell) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:20388730") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the amount of mannosylinositol phosphorylceramide measured in a cell is too low to detect.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:06:10Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "mannosylinositol phosphorylceramide absent from cell"@en) +SubClassOf( ) +SubClassOf( ) + +# Class: (abolished protein kinase activity in response to osmotic stress) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24498240") "A molecular function phenotype in which a protein kinase activity is absent during a cellular response to osmotic stress.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:24:16Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "abolished protein kinase activity in response to osmotic stress"@en) +SubClassOf( ) + +# Class: (abolished protein kinase activity in response to oxidative stress) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24498240") "A molecular function phenotype in which a protein kinase activity is absent during a cellular response to oxidative stress.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:24:34Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "abolished protein kinase activity in response to oxidative stress"@en) +SubClassOf( ) + +# Class: (normal chromatin silencing at rDNA) + +AnnotationAssertion( "A transcription regulation phenotype observed in the vegetative growth phase of the life cycle in which chromatin silencing in at rDNA is normal (i.e. indistinguishable from wild type). Chromatin silencing is the observed effect of processes that repress transcription in a region of the genome that is normally assembled into heterochromatin.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:31:34Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "normal chromatin silencing at rDNA"@en) +SubClassOf( ) + +# Class: (normal cellular phosphate (Pi) level) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37949217") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the amount of phosphate (Pi) in the cell is normal (i.e. indistinguishable from wild type).") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:35:05Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "normal cellular phosphate (Pi) level"@en) +SubClassOf( ) + +# Class: (normal total cellular phosphate (Pi) level) + +AnnotationAssertion( "A cell phenotype observed in the vegetative growth phase of the life cycle in which the total amount of phosphate (Pi) in the cell is normal (i.e. indistinguishable from wild type).") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:36:58Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasDbXref "PMID:37949217") +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "normal total cellular phosphate (Pi) level"@en) +SubClassOf( ) + +# Class: (decreased cellular phosphate (Pi) level) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37949217") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the amount of phosphate (Pi) measured in the cell is lower than normal.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:40:48Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "decreased cellular phosphate (Pi) level"@en) +SubClassOf( ) + +# Class: (decreased total cellular phosphate (Pi) level) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37949217") "A cell phenotype observed in the vegetative growth phase of the life cycle in which the total amount of phosphate (Pi) measured in the cell is lower than normal.") +AnnotationAssertion(oboInOwl:created_by "vw") +AnnotationAssertion(oboInOwl:creation_date "2024-07-04T13:41:40Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasOBONamespace "fission_yeast_phenotype") +AnnotationAssertion(rdfs:label "decreased total cellular phosphate (Pi) level"@en) +SubClassOf( ) + # Class: (decreased rate of cytoplasmic microtubule polymerization during mitotic interphase) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:36633091") Annotation(oboInOwl:hasDbXref "PomBase:mlr") "A microtubule cytoskeleton organization phenotype observed during mitotic interphase in which cytoplasmic microtubule polymerization, i.e. the addition of tubulin dimers to the plus end of a microtubule occurs at a lower rate, or speed, than normal.")