format-version: 1.2 data-version: releases/2016-02-18 date: 19:02:2016 14:22 saved-by: midori auto-generated-by: OBO-Edit 2.3.1 subsetdef: qc_do_not_annotate "Term not to be used for direct annotation" subsetdef: qc_do_not_manually_annotate "Term not to be used for direct manual annotation" default-namespace: fission_yeast_phenotype remark: svn version: $Revision: 714 $ ontology: fypo [Term] id: FYPO:0000001 name: phenotype def: "Any of the set of observable characteristics of an organism resulting from the interaction of its genotype with the environment." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast phenotype" EXACT [PomBase:mah] creation_date: 2011-03-16T03:59:25Z [Term] id: FYPO:0000002 name: cell phenotype def: "A phenotype that is observed at the level of an individual cell." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cell phenotype" EXACT [PomBase:mah] is_a: FYPO:0000001 ! phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in_part_of GO:0005575 ! cellular_component disjoint_from: FYPO:0000003 ! cell population phenotype relationship: inheres_in_part_of GO:0005575 ! cellular_component created_by: midori creation_date: 2011-03-16T04:25:28Z [Term] id: FYPO:0000003 name: cell population phenotype def: "A phenotype that is observed at the level of a population of cells." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Note: differentium is population level, and may reflect observation conditions. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cell population phenotype" EXACT [PomBase:mah] is_a: FYPO:0000001 ! phenotype created_by: midori creation_date: 2011-03-16T04:26:35Z [Term] id: FYPO:0000004 name: cell viability def: "A cell phenotype that consists of the cell's disposition to survive and develop normally." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Viability is usually determined under standard laboratory conditions, i.e. a cell is generally considered viable if it can grow in rich medium under normal conditions such as temperature, pressure, oxygen level, pH, etc. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate is_a: FYPO:0000136 ! cellular physical quality phenotype is_a: PATO:0000169 ! viability intersection_of: PATO:0000169 ! viability intersection_of: inheres_in CL:0000000 ! cell relationship: inheres_in CL:0000000 ! cell created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000005 name: abnormal cell morphology alt_id: FYPO:0000019 def: "A cell phenotype characterized by altered cell morphology, i.e. the size, shape, or structure of the cell is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "cell morphology, misshapen cells" RELATED [PomBase:mah] synonym: "cellular morphology: abnormal" EXACT [SGD:phenotype_annotation] is_a: FYPO:0003037 ! abnormal cell phenotype is_a: FYPO:0004638 ! abnormal cellular physical quality phenotype is_a: PATO:0000051 ! morphology intersection_of: PATO:0000051 ! morphology intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in CL:0000000 ! cell relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000011 name: abnormal cell cycle alt_id: FYPO:0000406 def: "A cellular process phenotype in which a cell does not proceed normally through a cell cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal cell-division cycle" EXACT [GO:0007049, PomBase:mah] synonym: "cell cycle defects" EXACT [PomBase:mah] synonym: "cell cycle progression: abnormal" EXACT [SGD:phenotype_annotation] is_a: FYPO:0000628 ! abnormal cellular process is_a: FYPO:0000631 ! cell cycle phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0007049 ! cell cycle intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0007049 ! cell cycle relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000045 name: abnormal cell population growth def: "A cell population phenotype in which a population of cells grow abnormally." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "growth defect" RELATED [PomBase:mah] is_a: FYPO:0000139 ! cell population growth phenotype is_a: FYPO:0000300 ! biological process phenotype is_a: FYPO:0001985 ! abnormal phenotype created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000046 name: decreased cell population growth alt_id: FYPO:0000222 def: "A cell population phenotype in which cell population growth is decreased relative to normal. Decreased growth may reflect a reduced growth rate (i.e. slower growth), growth that occurs to a lesser extent than normal, or both." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "aerobic growth defects" RELATED [PomBase:mah] synonym: "decreased aerobic cell population growth" NARROW [PomBase:mah] synonym: "decreased growth" BROAD [PomBase:mah] synonym: "reduced aerobic cell population growth" NARROW [PomBase:mah] synonym: "reduced cell population growth" EXACT [PomBase:mah] synonym: "slow aerobic cell population growth" NARROW [PomBase:mah] is_a: FYPO:0000045 ! abnormal cell population growth is_a: FYPO:0002058 ! viable cell population created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000047 name: normal cell population growth def: "A cell population phenotype in which a population of cells grow normally (i.e. indistinguishably from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "growth normal" BROAD [PomBase:mah] is_a: FYPO:0000139 ! cell population growth phenotype is_a: FYPO:0000257 ! normal phenotype is_a: FYPO:0002058 ! viable cell population created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000049 name: inviable cell def: "A viability phenotype in which a cell is unable to survive under conditions in which wild type cells survive." [PomBase:mah] comment: Viability is usually determined under standard laboratory conditions, i.e. a cell is generally considered inviable if it cannot grow in rich medium under normal conditions such as temperature, pressure, oxygen level, pH, etc. Note that if you have done an experiment that assays the viability of a population of cells, such as looking at colony growth or growth in liquid culture, you should also annotate to 'inviable cell population' (FYPO:0002059) or one of its descendants. This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "essential" RELATED [PomBase:mah] synonym: "lethal" EXACT [PomBase:mah] is_a: FYPO:0000004 ! cell viability is_a: PATO:0000718 ! lethal (sensu genetics) intersection_of: PATO:0000718 ! lethal (sensu genetics) intersection_of: inheres_in CL:0000000 ! cell relationship: inheres_in CL:0000000 ! cell created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000052 name: abnormal meiotic cell cycle def: "A cellular process phenotype in which a cell does not proceed normally through a meiotic cell cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "meiotic cell cycle defects" EXACT [PomBase:mah] is_a: FYPO:0000011 ! abnormal cell cycle intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0051321 ! meiotic cell cycle intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0051321 ! meiotic cell cycle relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000059 name: abnormal mitotic cell cycle def: "A cellular process phenotype in which a cell does not proceed normally through a mitotic cell cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "mitotic cell cycle defects" EXACT [PomBase:mah] synonym: "mitotic cell cycle: abnormal" EXACT [SGD:phenotype_annotation] is_a: FYPO:0000011 ! abnormal cell cycle intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0000278 ! mitotic cell cycle intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0000278 ! mitotic cell cycle relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-03-29T05:53:56Z [Term] id: FYPO:0000114 name: cellular process phenotype def: "A phenotype that affects a cellular process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cellular process phenotype" EXACT [PomBase:mah] is_a: FYPO:0000002 ! cell phenotype is_a: FYPO:0000300 ! biological process phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in_part_of GO:0044763 ! single-organism cellular process relationship: inheres_in_part_of GO:0044763 ! single-organism cellular process created_by: midori creation_date: 2011-04-12T12:00:38Z [Term] id: FYPO:0000124 name: viable cell def: "A viability phenotype in which a cell is able to survive under the specified conditions." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000004 ! cell viability is_a: PATO:0000719 ! viable intersection_of: PATO:0000719 ! viable intersection_of: inheres_in CL:0000000 ! cell relationship: inheres_in CL:0000000 ! cell created_by: midori creation_date: 2011-03-29T05:54:40Z [Term] id: FYPO:0000136 name: cellular physical quality phenotype def: "A phenotype that affects any physical object quality, such as morphology, number, location, etc., of a cell or a cellular component." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cellular physical object quality phenotype" EXACT [PATO:0001241] synonym: "fission yeast cellular physical object quality phenotype" EXACT [PomBase:mah] is_a: FYPO:0000002 ! cell phenotype is_a: PATO:0001241 ! physical object quality intersection_of: PATO:0001241 ! physical object quality intersection_of: inheres_in_part_of GO:0005575 ! cellular_component relationship: inheres_in_part_of GO:0005575 ! cellular_component created_by: midori creation_date: 2011-04-12T12:01:21Z [Term] id: FYPO:0000137 name: mitotic cell cycle checkpoint phenotype def: "A cell phenotype that affects any mitotic cell cycle checkpoint." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast mitotic cell cycle checkpoint phenotype" EXACT [PomBase:mah] is_a: FYPO:0000631 ! cell cycle phenotype is_a: FYPO:0001334 ! regulation phenotype during vegetative growth intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0007093 ! mitotic cell cycle checkpoint relationship: inheres_in_part_of GO:0007093 ! mitotic cell cycle checkpoint created_by: midori creation_date: 2011-04-12T12:55:38Z [Term] id: FYPO:0000138 name: localization phenotype def: "A cell phenotype that affects the localization of a structure or substance in a cell." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast localization phenotype" EXACT [PomBase:mah] synonym: "localisation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0051641 ! cellular localization relationship: inheres_in_part_of GO:0051641 ! cellular localization created_by: midori creation_date: 2011-04-12T02:16:04Z [Term] id: FYPO:0000139 name: cell population growth phenotype def: "A cell phenotype that affects the rate or extent of cell population growth." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cell population growth phenotype" EXACT [PomBase:mah] is_a: FYPO:0000003 ! cell population phenotype created_by: midori creation_date: 2011-04-12T02:22:51Z [Term] id: FYPO:0000140 name: cellular metabolism phenotype def: "A cellular process phenotype that affects metabolism in the cell." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cellular metabolism phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0044237 ! cellular metabolic process relationship: inheres_in_part_of GO:0044237 ! cellular metabolic process created_by: midori creation_date: 2011-04-12T02:23:26Z [Term] id: FYPO:0000142 name: gene expression phenotype def: "A cellular process phenotype that affects gene expression. Gene expression includes transcription, RNA processing, and, for protein-coding genes, translation and protein maturation." [GO:0010467, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast gene expression phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0010467 ! gene expression relationship: inheres_in_part_of GO:0010467 ! gene expression created_by: midori creation_date: 2011-04-12T05:46:51Z [Term] id: FYPO:0000143 name: transcription regulation phenotype def: "A gene expression phenotype that affects the regulation of DNA-dependent transcription." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast transcription regulation phenotype" EXACT [PomBase:mah] synonym: "gene-specific transcription regulation phenotype" RELATED [GO:0006355, PomBase:mah] synonym: "transcriptional control phenotype" BROAD [GO:0006355, PomBase:mah] is_a: FYPO:0000288 ! gene expression regulation phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0006355 ! regulation of transcription, DNA-templated relationship: inheres_in_part_of GO:0006355 ! regulation of transcription, DNA-templated created_by: midori creation_date: 2011-04-12T05:47:38Z [Term] id: FYPO:0000145 name: regulation phenotype def: "A cellular process phenotype that affects the regulation of a molecular function, biological process, or biological quality." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast regulation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0065007 ! biological regulation relationship: inheres_in_part_of GO:0065007 ! biological regulation created_by: midori creation_date: 2011-04-12T06:00:44Z [Term] id: FYPO:0000149 name: transport phenotype def: "A cell process phenotype that affects a transport process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast transport phenotype" EXACT [PomBase:mah] is_a: FYPO:0000138 ! localization phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0006810 ! transport relationship: inheres_in_part_of GO:0006810 ! transport created_by: midori creation_date: 2011-04-14T05:43:20Z [Term] id: FYPO:0000257 name: normal phenotype def: "A phenotype that shows no detectable differences from normal. In fission yeast, the characteristics of wild type cells of the sequenced strain (972 h-) or the isogenic h+ or h90 strains are regarded as normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast normal phenotype" EXACT [PomBase:mah] synonym: "no obvious phenotype" EXACT [PomBase:mah] is_a: FYPO:0000001 ! phenotype is_a: PATO:0000001 ! quality intersection_of: PATO:0000001 ! quality intersection_of: inheres_in FYPO:0000001 ! phenotype intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in FYPO:0000001 ! phenotype relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2011-04-19T02:59:38Z [Term] id: FYPO:0000287 name: abnormal subcellular component def: "A physical cellular phenotype in which the amount, distribution, composition or morphology of a cell part is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal subcellular component physical object quality" EXACT [PomBase:mah] synonym: "abnormal subcellular structure" RELATED [PomBase:mah] is_a: FYPO:0004638 ! abnormal cellular physical quality phenotype intersection_of: PATO:0001241 ! physical object quality intersection_of: inheres_in_part_of GO:0044464 ! cell part intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0044464 ! cell part relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-04-21T11:18:18Z [Term] id: FYPO:0000288 name: gene expression regulation phenotype def: "A regulation phenotype that affects the regulation of gene expression." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast gene expression regulation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000142 ! gene expression phenotype is_a: FYPO:0000145 ! regulation phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0010468 ! regulation of gene expression relationship: inheres_in_part_of GO:0010468 ! regulation of gene expression created_by: midori creation_date: 2011-04-21T02:22:36Z [Term] id: FYPO:0000289 name: translation regulation phenotype def: "A gene expression phenotype that affects the regulation of translation." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast translation regulation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000288 ! gene expression regulation phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0006417 ! regulation of translation relationship: inheres_in_part_of GO:0006417 ! regulation of translation created_by: midori creation_date: 2011-04-21T02:25:06Z [Term] id: FYPO:0000290 name: transcription phenotype during vegetative growth def: "A cellular process phenotype observed in the vegetative growth phase of the life cycle that affects DNA-dependent transcription." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "transcription phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0004847 ! transcription phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0006351 ! transcription, DNA-templated relationship: during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0006351 ! transcription, DNA-templated created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000291 name: translation phenotype def: "A cellular process phenotype that affects translation." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast translation phenotype" EXACT [PomBase:mah] synonym: "translation phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "translation phenotype during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000142 ! gene expression phenotype is_a: FYPO:0001348 ! cellular metabolism phenotype during vegetative growth intersection_of: FYPO:0000002 ! cell phenotype intersection_of: during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0006412 ! translation relationship: during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0006412 ! translation created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000292 name: nucleic acid metabolism phenotype def: "A cellular process phenotype that affects any nucleic acid metabolic process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast nucleic acid metabolism phenotype" EXACT [PomBase:mah] is_a: FYPO:0000140 ! cellular metabolism phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0090304 ! nucleic acid metabolic process relationship: inheres_in_part_of GO:0090304 ! nucleic acid metabolic process created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000293 name: DNA metabolism phenotype def: "A cellular process phenotype that affects any DNA metabolic process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast DNA metabolism phenotype" EXACT [PomBase:mah] is_a: FYPO:0000292 ! nucleic acid metabolism phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0006259 ! DNA metabolic process relationship: inheres_in_part_of GO:0006259 ! DNA metabolic process created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000294 name: RNA metabolism phenotype def: "A cellular process phenotype that affects any RNA metabolic process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast RNA metabolism phenotype" EXACT [PomBase:mah] synonym: "RNA metabolism phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "RNA metabolism phenotype during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000292 ! nucleic acid metabolism phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0016070 ! RNA metabolic process relationship: inheres_in_part_of GO:0016070 ! RNA metabolic process created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000295 name: cytoskeleton organization phenotype def: "A cellular process phenotype that affects cytoskeleton organization. Cytoskeleton organization results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GO:0007010, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cytoskeleton organisation phenotype" EXACT [PomBase:mah] synonym: "fission yeast cytoskeleton organization phenotype" EXACT [PomBase:mah] is_a: FYPO:0000334 ! cellular component organization phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0007010 ! cytoskeleton organization relationship: inheres_in_part_of GO:0007010 ! cytoskeleton organization created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000297 name: microtubule cytoskeleton organization phenotype def: "A cellular process phenotype that affects the organization of the microtubule cytoskeleton. Microtubule cytoskeleton organization results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and associated proteins." [GO:0000226, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast microtubule cytoskeleton organization phenotype" EXACT [PomBase:mah] synonym: "microtubule cytoskeleton organisation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000295 ! cytoskeleton organization phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0000226 ! microtubule cytoskeleton organization relationship: inheres_in_part_of GO:0000226 ! microtubule cytoskeleton organization created_by: midori creation_date: 2011-04-21T02:31:20Z [Term] id: FYPO:0000298 name: cellular response phenotype def: "A cellular process phenotype that affects a response to a stimulus." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cellular response phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0051716 ! cellular response to stimulus relationship: inheres_in_part_of GO:0051716 ! cellular response to stimulus created_by: midori creation_date: 2011-04-21T04:47:15Z [Term] id: FYPO:0000300 name: biological process phenotype def: "A phenotype that affects a biological process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast biological process phenotype" EXACT [PomBase:mah] is_a: FYPO:0000001 ! phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in_part_of GO:0008150 ! biological_process relationship: inheres_in_part_of GO:0008150 ! biological_process created_by: midori creation_date: 2011-04-26T02:25:13Z [Term] id: FYPO:0000334 name: cellular component organization phenotype def: "A phenotype that affects a process of cellular component organization, i.e. the assembly, arrangement of constituent parts, or disassembly of a cellular component, that occurs at the cellular level." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cellular component organisation phenotype" EXACT [PomBase:mah] synonym: "cellular component organization phenotype at cellular level" EXACT [PomBase:mah] synonym: "fission yeast cellular component organization phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0016043 ! cellular component organization relationship: inheres_in_part_of GO:0016043 ! cellular component organization created_by: midori creation_date: 2011-06-03T11:55:29Z [Term] id: FYPO:0000335 name: abnormal cellular component organization def: "A cellular process phenotype in which any process of cellular component organization at the cellular level is abnormal." [GO:0016043, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal cellular component organisation" EXACT [PomBase:mah] synonym: "abnormal cellular component organization at cellular level" EXACT [PomBase:mah] is_a: FYPO:0000334 ! cellular component organization phenotype is_a: FYPO:0000628 ! abnormal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0016043 ! cellular component organization intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0016043 ! cellular component organization relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-06-03T11:57:14Z [Term] id: FYPO:0000336 name: abnormal cellular component assembly def: "A cellular process phenotype in which any process of cellular component assembly at the cellular level is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal cellular component assembly at cellular level" EXACT [PomBase:mah] is_a: FYPO:0000335 ! abnormal cellular component organization intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0022607 ! cellular component assembly intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0022607 ! cellular component assembly relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-06-03T12:00:35Z [Term] id: FYPO:0000623 name: abnormal positive regulation of transcription def: "A transcription regulation phenotype in which any process of positive regulation of transcription is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. There may be enough evidence to support annotation to a more specific term such as 'abnormal transcriptional response to pheromone' (FYPO:0000984); if not, it is safer to annotate to 'increased transcription during vegetative growth' (FYPO:0000780) or 'decreased transcription during vegetative growth' (FYPO:0000781) rather than explicitly claiming that an effect on regulation was observed. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal activation of gene-specific transcription" RELATED [GO:0045893, PomBase:mah] synonym: "abnormal activation of transcription, DNA-dependent" NARROW [GO:0045893, PomBase:mah] synonym: "abnormal positive regulation of cellular transcription, DNA-dependent" EXACT [GO:0045893, PomBase:mah] synonym: "abnormal positive regulation of gene-specific transcription" RELATED [GO:0045893, PomBase:mah] synonym: "abnormal positive regulation of transcription, DNA-dependent" EXACT [GO:0045893, PomBase:mah] synonym: "abnormal stimulation of gene-specific transcription" NARROW [GO:0045893, PomBase:mah] synonym: "abnormal stimulation of transcription, DNA-dependent" NARROW [GO:0045893, PomBase:mah] synonym: "abnormal up regulation of gene-specific transcription" RELATED [GO:0045893, PomBase:mah] synonym: "abnormal up regulation of transcription, DNA-dependent" EXACT [GO:0045893, PomBase:mah] synonym: "abnormal up-regulation of gene-specific transcription" RELATED [GO:0045893, PomBase:mah] synonym: "abnormal up-regulation of transcription, DNA-dependent" EXACT [GO:0045893, PomBase:mah] synonym: "abnormal upregulation of gene-specific transcription" RELATED [GO:0045893, PomBase:mah] synonym: "abnormal upregulation of transcription, DNA-dependent" EXACT [GO:0045893, PomBase:mah] is_a: FYPO:0000143 ! transcription regulation phenotype is_a: FYPO:0000628 ! abnormal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0045893 ! positive regulation of transcription, DNA-templated intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0045893 ! positive regulation of transcription, DNA-templated relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-08-19T03:38:05Z [Term] id: FYPO:0000624 name: abnormal negative regulation of transcription during vegetative growth def: "A transcription regulation phenotype observed in the vegetative growth phase of the life cycle in which any process of negative regulation of transcription is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. There may be enough evidence to support annotation to a more specific term such as 'abnormal chromatin silencing' (FYPO:0000144); if not, it is safer to annotate to 'increased transcription during vegetative growth' (FYPO:0000780) or 'decreased transcription during vegetative growth' (FYPO:0000781) rather than explicitly claiming that an effect on regulation was observed. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal down regulation of gene-specific transcription during vegetative growth" RELATED [GO:0045892, PomBase:mah] synonym: "abnormal down regulation of transcription, DNA-dependent, during vegetative growth" EXACT [GO:0045892, PomBase:mah] synonym: "abnormal down-regulation of gene-specific transcription during vegetative growth" RELATED [GO:0045892, PomBase:mah] synonym: "abnormal down-regulation of transcription, DNA-dependent, during vegetative growth" EXACT [GO:0045892, PomBase:mah] synonym: "abnormal downregulation of gene-specific transcription during vegetative growth" RELATED [GO:0045892, PomBase:mah] synonym: "abnormal downregulation of transcription, DNA-dependent, during vegetative growth" EXACT [GO:0045892, PomBase:mah] synonym: "abnormal inhibition of gene-specific transcription during vegetative growth" RELATED [GO:0045892, PomBase:mah] synonym: "abnormal inhibition of transcription, DNA-dependent, during vegetative growth" NARROW [GO:0045892, PomBase:mah] synonym: "abnormal negative regulation of cellular transcription, DNA-dependent, during vegetative growth" EXACT [GO:0045892, PomBase:mah] synonym: "abnormal negative regulation of gene-specific transcription during vegetative growth" RELATED [GO:0045892, PomBase:mah] synonym: "abnormal negative regulation of transcription during mitotic cell cycle" RELATED [PomBase:mah] synonym: "abnormal negative regulation of transcription, DNA-dependent, during vegetative growth" EXACT [GO:0045892, PomBase:mah] is_a: FYPO:0001335 ! transcription regulation phenotype during vegetative growth is_a: FYPO:0001362 ! abnormal cellular process during vegetative growth intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: qualifier PATO:0000460 ! abnormal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0045892 ! negative regulation of transcription, DNA-templated relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-08-19T03:40:47Z [Term] id: FYPO:0000627 name: normal cellular process def: "A phenotype in which a specific cellular process is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000114 ! cellular process phenotype is_a: FYPO:0000257 ! normal phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0044763 ! single-organism cellular process intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:0044763 ! single-organism cellular process relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2011-08-19T04:05:16Z [Term] id: FYPO:0000628 name: abnormal cellular process def: "A phenotype in which a specific cellular process is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate is_a: FYPO:0000114 ! cellular process phenotype is_a: FYPO:0003037 ! abnormal cell phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0044763 ! single-organism cellular process intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0044763 ! single-organism cellular process relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-08-19T04:06:34Z [Term] id: FYPO:0000631 name: cell cycle phenotype def: "A cellular process phenotype that affects progression of the mitotic or meiotic cell cycle, or regulation of cell cycle progression." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cell-division cycle phenotype" EXACT [GO:0007049, PomBase:mah] synonym: "fission yeast cell cycle phenotype" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in_part_of GO:0007049 ! cell cycle relationship: inheres_in_part_of GO:0007049 ! cell cycle created_by: midori creation_date: 2011-08-19T04:16:04Z [Term] id: FYPO:0000652 name: molecular function phenotype def: "A phenotype that affects a molecular function such as binding or catalytic activity." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast molecular function phenotype" EXACT [PomBase:mah] is_a: FYPO:0000001 ! phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0003674 ! molecular_function relationship: inheres_in GO:0003674 ! molecular_function created_by: midori creation_date: 2011-11-11T10:42:36Z [Term] id: FYPO:0000653 name: DNA binding phenotype def: "A phenotype that affects DNA binding. The affected gene product may be encoded by the mutated gene, or by a different gene." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast DNA binding phenotype" EXACT [PomBase:mah] is_a: FYPO:0001092 ! binding phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0003677 ! DNA binding relationship: inheres_in GO:0003677 ! DNA binding created_by: midori creation_date: 2011-11-11T10:43:39Z [Term] id: FYPO:0000654 name: catalytic activity phenotype def: "A phenotype that affects a catalytic activity." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "enzymatic activity phenotype" EXACT [PomBase:mah] synonym: "fission yeast catalytic activity phenotype" EXACT [PomBase:mah] is_a: FYPO:0000652 ! molecular function phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0003824 ! catalytic activity relationship: inheres_in GO:0003824 ! catalytic activity created_by: midori creation_date: 2011-11-11T10:44:09Z [Term] id: FYPO:0000682 name: abnormal regulation of molecular function def: "A regulation phenotype observed in the vegetative growth phase of the life cycle in which regulation of a molecular function is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal regulation of molecular function during mitotic cell cycle" RELATED [PomBase:mah] synonym: "abnormal regulation of molecular function during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0001334 ! regulation phenotype during vegetative growth is_a: FYPO:0001362 ! abnormal cellular process during vegetative growth intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0065009 ! regulation of molecular function intersection_of: qualifier PATO:0000460 ! abnormal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0065009 ! regulation of molecular function relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-12-01T01:43:05Z [Term] id: FYPO:0000702 name: protein binding phenotype def: "A phenotype that protein affects the binding of one protein to another. The relevant proteins may include the one encoded by the mutated gene, or may both be encoded by different genes." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast protein binding phenotype" EXACT [PomBase:mah] is_a: FYPO:0001092 ! binding phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0005515 ! protein binding relationship: inheres_in GO:0005515 ! protein binding created_by: midori creation_date: 2011-12-05T02:24:49Z [Term] id: FYPO:0000706 name: normal molecular function def: "A phenotype in which a specific molecular function is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate is_a: FYPO:0000257 ! normal phenotype is_a: FYPO:0000652 ! molecular function phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0003674 ! molecular_function intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:0003674 ! molecular_function relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2011-12-05T03:06:23Z [Term] id: FYPO:0000707 name: abnormal molecular function def: "A phenotype in which a specific molecular function is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate is_a: FYPO:0000652 ! molecular function phenotype is_a: FYPO:0001985 ! abnormal phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0003674 ! molecular_function intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in GO:0003674 ! molecular_function relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2011-12-05T03:09:24Z [Term] id: FYPO:0000824 name: altered RNA level def: "A cell phenotype in which the amount of RNA measured in a cell differs from normal. Total RNA or a specific RNA, such as the mRNA transcribed from a gene of interest, may be affected." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal RNA level" EXACT [PomBase:mah] synonym: "altered cellular mRNA level" NARROW [PomBase:vw] synonym: "altered cellular RNA level" EXACT [PomBase:mah] synonym: "RNA accumulation: abnormal" RELATED [SGD:phenotype_annotation] is_a: FYPO:0000989 ! altered level of substance in cell intersection_of: PATO:0001159 ! concentrated intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:33697 ! ribonucleic acid relationship: inheres_in CL:0000000 ! cell relationship: output_of FYPO:0000142 ! gene expression phenotype relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:33697 ! ribonucleic acid created_by: midori creation_date: 2012-03-08T03:02:56Z [Term] id: FYPO:0000834 name: altered protein level def: "A cell phenotype in which the amount of protein measured in a cell differs from normal. Total protein or a specific protein may be affected." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Consider annotating to a term describing abnormal translation or abnormal regulation of translation, but note that changes in protein levels may result from changes in protein stability or degradation as well as changes in protein synthesis. subset: qc_do_not_manually_annotate synonym: "abnormal protein level" EXACT [PomBase:mah] synonym: "altered cellular protein level" EXACT [PomBase:mah] synonym: "protein/peptide accumulation: abnormal" RELATED [SGD:phenotype_annotation] is_a: FYPO:0000989 ! altered level of substance in cell intersection_of: PATO:0001159 ! concentrated intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:36080 ! protein relationship: inheres_in CL:0000000 ! cell relationship: output_of FYPO:0000142 ! gene expression phenotype relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:36080 ! protein created_by: midori creation_date: 2012-03-09T03:50:50Z [Term] id: FYPO:0000860 name: abnormal metabolic process def: "A cellular process phenotype in which a cellular metabolic process is abnormal. A metabolic process is any set of chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances." [GO:0044237, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal cellular metabolic process" EXACT [GO:0044237, PomBase:mah] synonym: "abnormal metabolism" EXACT [GO:0044237, PomBase:mah] is_a: FYPO:0000140 ! cellular metabolism phenotype is_a: FYPO:0000628 ! abnormal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0044237 ! cellular metabolic process intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0044237 ! cellular metabolic process relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2012-03-20T12:11:59Z [Term] id: FYPO:0000953 name: normal cellular response to chemical stimulus def: "A cellular response phenotype in which the cellular response to a chemical stimulus is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000298 ! cellular response phenotype is_a: FYPO:0000627 ! normal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0070887 ! cellular response to chemical stimulus intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:0070887 ! cellular response to chemical stimulus relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2012-04-12T12:15:57Z [Term] id: FYPO:0000989 name: altered level of substance in cell def: "A cell phenotype in which the amount of a specific substance measured in a cell differs from normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal level of substance in cell" EXACT [PomBase:mah] is_a: FYPO:0003037 ! abnormal cell phenotype is_a: FYPO:0004638 ! abnormal cellular physical quality phenotype is_a: PATO:0001159 ! concentrated intersection_of: PATO:0001159 ! concentrated intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:24431 ! chemical entity relationship: inheres_in CL:0000000 ! cell relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2012-04-25T02:06:49Z [Term] id: FYPO:0000990 name: increased level of substance in cell def: "A cell phenotype in which the amount of a specific substance measured in a cell is higher than normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "increased accumulation of substance in cell" RELATED [PomBase:mah] is_a: FYPO:0000989 ! altered level of substance in cell is_a: PATO:0001162 ! increased concentration intersection_of: PATO:0001162 ! increased concentration intersection_of: inheres_in CL:0000000 ! cell intersection_of: towards CHEBI:24431 ! chemical entity relationship: inheres_in CL:0000000 ! cell relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2012-04-25T02:07:28Z [Term] id: FYPO:0000991 name: decreased level of substance in cell def: "A cell phenotype in which the amount of a specific substance measured in a cell is lower than normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "reduced level of substance in cell" EXACT [PomBase:mah] is_a: FYPO:0000989 ! altered level of substance in cell is_a: PATO:0001163 ! decreased concentration intersection_of: PATO:0001163 ! decreased concentration intersection_of: inheres_in CL:0000000 ! cell intersection_of: towards CHEBI:24431 ! chemical entity relationship: inheres_in CL:0000000 ! cell relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2012-04-25T02:08:00Z [Term] id: FYPO:0001024 name: cell cycle arrest phenotype def: "A cell cycle phenotype that affects or involves the normal or abnormal occurrence of cell cycle arrest. In cell cycle arrest, progression through the cell cycle is halted during one of the normal phases (G1, S, G2, or M)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast cell cycle arrest phenotype" EXACT [PomBase:mah] is_a: FYPO:0000145 ! regulation phenotype is_a: FYPO:0000631 ! cell cycle phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0007050 ! cell cycle arrest relationship: inheres_in_part_of GO:0007050 ! cell cycle arrest created_by: midori creation_date: 2012-05-09T01:15:41Z [Term] id: FYPO:0001076 name: normal level of substance in cell def: "A cell phenotype in which the amount of a specific substance measured in a cell is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000136 ! cellular physical quality phenotype is_a: FYPO:0000257 ! normal phenotype is_a: PATO:0001159 ! concentrated intersection_of: PATO:0001159 ! concentrated intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000461 ! normal intersection_of: towards CHEBI:24431 ! chemical entity relationship: inheres_in CL:0000000 ! cell relationship: qualifier PATO:0000461 ! normal relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2012-05-31T16:27:42Z [Term] id: FYPO:0001092 name: binding phenotype def: "A phenotype that affects the binding of a gene product to another substance. The affected gene product may be encoded by the mutated gene, or by a different gene." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast binding phenotype" EXACT [PomBase:mah] is_a: FYPO:0000652 ! molecular function phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0005488 ! binding relationship: inheres_in GO:0005488 ! binding created_by: midori creation_date: 2012-06-01T14:07:32Z [Term] id: FYPO:0001233 name: normal subcellular component def: "A cell phenotype in which the amount, distribution, composition or morphology of a cell part is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "normal subcellular structure" RELATED [PomBase:al] is_a: FYPO:0000136 ! cellular physical quality phenotype is_a: FYPO:0000257 ! normal phenotype intersection_of: PATO:0001241 ! physical object quality intersection_of: inheres_in GO:0044464 ! cell part intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:0044464 ! cell part relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2012-07-16T13:59:40Z [Term] id: FYPO:0001312 name: normal vegetative phenotype def: "A normal phenotype that is observed when cells are in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "fission yeast normal vegetative phenotype" EXACT [PomBase:mah] is_a: FYPO:0000257 ! normal phenotype created_by: midori creation_date: 2012-08-01T11:18:45Z [Term] id: FYPO:0001313 name: normal subcellular component during vegetative growth def: "A cell phenotype in which the amount, distribution, or morphology of a cell part is normal (i.e. indistinguishable from wild type) when the cell is in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "normal subcellular component during mitotic cell cycle" RELATED [PomBase:mah] synonym: "normal subcellular structure during vegetative growth" RELATED [PomBase:mah] is_a: FYPO:0001233 ! normal subcellular component is_a: FYPO:0001321 ! cellular physical quality phenotype during vegetative growth intersection_of: PATO:0001241 ! physical object quality intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in GO:0044464 ! cell part intersection_of: qualifier PATO:0000461 ! normal relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in GO:0044464 ! cell part relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2012-08-01T12:32:26Z [Term] id: FYPO:0001319 name: normal cellular process during vegetative growth def: "A phenotype in which a specific cellular process is normal (i.e. indistinguishable from wild type) in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "normal cellular process during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000627 ! normal cellular process is_a: FYPO:0001312 ! normal vegetative phenotype is_a: FYPO:0001331 ! cellular process phenotype during vegetative growth intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in GO:0044763 ! single-organism cellular process intersection_of: qualifier PATO:0000461 ! normal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in GO:0044763 ! single-organism cellular process relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2012-08-01T13:42:47Z [Term] id: FYPO:0001320 name: vegetative cell phenotype def: "A phenotype that is observed at the level of an individual cell, when the cell is in the vegetative growth phase of the cell cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cell phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "fission yeast vegetative cell phenotype" EXACT [PomBase:mah] synonym: "vegetative cell phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "vegetative cell phenotype during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000002 ! cell phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: during GO:0072690 ! single-celled organism vegetative growth phase relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase created_by: midori creation_date: 2012-08-01T13:52:18Z [Term] id: FYPO:0001321 name: cellular physical quality phenotype during vegetative growth def: "A phenotype that affects any physical object quality, such as morphology, number, location, etc., of a cell or a cellular component in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cellular physical object quality phenotype during vegetative growth" EXACT [PATO:0001241] synonym: "cellular physical quality phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "fission yeast cellular physical object quality phenotype during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000136 ! cellular physical quality phenotype is_a: FYPO:0001320 ! vegetative cell phenotype intersection_of: PATO:0001241 ! physical object quality intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0005575 ! cellular_component relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0005575 ! cellular_component created_by: midori creation_date: 2012-08-01T14:44:55Z [Term] id: FYPO:0001322 name: abnormal subcellular component during vegetative growth def: "A physical cellular phenotype in which the amount, distribution, morphology, or other physical characteristic of a cell part is abnormal in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal subcellular component during mitotic cell cycle" RELATED [PomBase:mah] synonym: "abnormal subcellular structure during vegetative growth" RELATED [PomBase:mah] is_a: FYPO:0000287 ! abnormal subcellular component is_a: FYPO:0004639 ! abnormal cellular physical quality phenotype during vegetative growth intersection_of: PATO:0001241 ! physical object quality intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in GO:0044464 ! cell part intersection_of: qualifier PATO:0000460 ! abnormal relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in GO:0044464 ! cell part relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2012-08-01T14:46:27Z [Term] id: FYPO:0001323 name: altered level of substance in cell during vegetative growth def: "A cell phenotype in which the amount of a specific substance measured in a cell differs from normal when the cell is in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal level of substance in cell during vegetative growth" EXACT [PomBase:mah] synonym: "altered level of substance in cell during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000989 ! altered level of substance in cell is_a: FYPO:0004639 ! abnormal cellular physical quality phenotype during vegetative growth intersection_of: PATO:0001159 ! concentrated intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in CL:0000334 ! vegetative cell (sensu Fungi) intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:24431 ! chemical entity relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in CL:0000334 ! vegetative cell (sensu Fungi) relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2012-08-01T14:57:41Z [Term] id: FYPO:0001326 name: altered RNA level during vegetative growth def: "A cell phenotype in which the amount of RNA measured in a cell differs from normal when the cell is in the vegetative growth phase of the life cycle. Total RNA or a specific RNA, such as the mRNA transcribed from a gene of interest, may be affected." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Also, consider annotating to a term describing abnormal transcription or abnormal regulation of transcription, but note that changes in RNA levels may result from changes in RNA stability as well as changes in transcription. We recommend noting which RNA(s) were used in the assay when annotating to this term or its descendants. subset: qc_do_not_manually_annotate synonym: "abnormal RNA level during vegetative growth" EXACT [PomBase:mah] synonym: "altered cellular RNA level during vegetative growth" EXACT [PomBase:mah] synonym: "altered RNA level during mitotic cell cycle" RELATED [PomBase:mah] synonym: "altered transcript level during vegetative growth" EXACT [PomBase:vw] is_a: FYPO:0000824 ! altered RNA level is_a: FYPO:0001323 ! altered level of substance in cell during vegetative growth intersection_of: PATO:0001159 ! concentrated intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in CL:0000334 ! vegetative cell (sensu Fungi) intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:33697 ! ribonucleic acid relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in CL:0000334 ! vegetative cell (sensu Fungi) relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:33697 ! ribonucleic acid created_by: midori creation_date: 2012-08-01T15:11:33Z [Term] id: FYPO:0001330 name: increased level of substance in cell during vegetative growth def: "A cell phenotype in which the amount of a specific substance measured in a cell is higher than normal when the cell is in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "increased accumulation of substance in cell during vegetative growth" RELATED [PomBase:mah] synonym: "increased level of substance in cell during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000990 ! increased level of substance in cell is_a: FYPO:0001323 ! altered level of substance in cell during vegetative growth intersection_of: PATO:0001162 ! increased concentration intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in CL:0000334 ! vegetative cell (sensu Fungi) intersection_of: towards CHEBI:24431 ! chemical entity relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in CL:0000334 ! vegetative cell (sensu Fungi) relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2012-08-01T16:24:14Z [Term] id: FYPO:0001331 name: cellular process phenotype during vegetative growth def: "A phenotype that affects a cellular process in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cellular process phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "fission yeast cellular process phenotype during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000114 ! cellular process phenotype is_a: FYPO:0001320 ! vegetative cell phenotype intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0044763 ! single-organism cellular process relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0044763 ! single-organism cellular process created_by: midori creation_date: 2012-08-01T16:27:01Z [Term] id: FYPO:0001333 name: gene expression regulation phenotype during vegetative growth def: "A regulation phenotype that affects the regulation of gene expression in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast gene expression regulation phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "gene expression regulation phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000288 ! gene expression regulation phenotype is_a: FYPO:0001334 ! regulation phenotype during vegetative growth intersection_of: FYPO:0000002 ! cell phenotype intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0010468 ! regulation of gene expression relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0010468 ! regulation of gene expression created_by: midori creation_date: 2012-08-01T16:33:19Z [Term] id: FYPO:0001334 name: regulation phenotype during vegetative growth def: "A cellular process phenotype that affects the regulation of a molecular function, biological process, or biological quality in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast regulation phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "regulation phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000145 ! regulation phenotype is_a: FYPO:0001331 ! cellular process phenotype during vegetative growth intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0065007 ! biological regulation relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0065007 ! biological regulation created_by: midori creation_date: 2012-08-01T16:33:52Z [Term] id: FYPO:0001335 name: transcription regulation phenotype during vegetative growth def: "A gene expression phenotype that affects the regulation of DNA-dependent transcription in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast transcription regulation phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "gene-specific transcription regulation phenotype during vegetative growth" RELATED [GO:0006355, PomBase:mah] synonym: "transcription regulation phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "transcriptional control phenotype during vegetative growth" BROAD [GO:0006355, PomBase:mah] is_a: FYPO:0000143 ! transcription regulation phenotype is_a: FYPO:0001333 ! gene expression regulation phenotype during vegetative growth intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0006355 ! regulation of transcription, DNA-templated relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0006355 ! regulation of transcription, DNA-templated created_by: midori creation_date: 2012-08-01T16:36:22Z [Term] id: FYPO:0001337 name: localization phenotype during vegetative growth def: "A cell phenotype that affects the localization of a structure or substance in a cell in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast localization phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "localisation phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "localization phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000138 ! localization phenotype is_a: FYPO:0001331 ! cellular process phenotype during vegetative growth intersection_of: FYPO:0000002 ! cell phenotype intersection_of: during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0051641 ! cellular localization relationship: during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0051641 ! cellular localization created_by: midori creation_date: 2012-08-01T16:55:18Z [Term] id: FYPO:0001347 name: nucleic acid metabolism phenotype during vegetative growth def: "A cellular process phenotype that affects any nucleic acid metabolic process in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast nucleic acid metabolism phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "nucleic acid metabolism phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000292 ! nucleic acid metabolism phenotype is_a: FYPO:0001348 ! cellular metabolism phenotype during vegetative growth intersection_of: FYPO:0000002 ! cell phenotype intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0090304 ! nucleic acid metabolic process relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0090304 ! nucleic acid metabolic process created_by: midori creation_date: 2012-08-01T17:39:21Z [Term] id: FYPO:0001348 name: cellular metabolism phenotype during vegetative growth def: "A cellular process phenotype that affects metabolism in the cell in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cellular metabolism phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "fission yeast cellular metabolism phenotype during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000140 ! cellular metabolism phenotype is_a: FYPO:0001331 ! cellular process phenotype during vegetative growth intersection_of: FYPO:0000002 ! cell phenotype intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0044237 ! cellular metabolic process relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0044237 ! cellular metabolic process created_by: midori creation_date: 2012-08-01T17:40:24Z [Term] id: FYPO:0001356 name: abnormal vegetative cell population growth def: "A cellular process phenotype in which vegetative cell population growth is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Note that cell growth terms refer to growth under aerobic conditions unless stated otherwise. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "vegetative growth defect" RELATED [PomBase:mah] is_a: FYPO:0000045 ! abnormal cell population growth is_a: FYPO:0001358 ! vegetative cell population growth phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0072690 ! single-celled organism vegetative growth phase intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in GO:0072690 ! single-celled organism vegetative growth phase relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2012-08-01T18:17:46Z [Term] id: FYPO:0001358 name: vegetative cell population growth phenotype def: "A cell phenotype that affects the rate or extent of cell population growth in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cell population growth phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "fission yeast cell population growth phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "vegetative cell population growth phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000139 ! cell population growth phenotype is_a: FYPO:0000300 ! biological process phenotype intersection_of: FYPO:0000139 ! cell population growth phenotype intersection_of: inheres_in_part_of GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0072690 ! single-celled organism vegetative growth phase created_by: midori creation_date: 2012-08-01T18:21:02Z [Term] id: FYPO:0001362 name: abnormal cellular process during vegetative growth def: "A phenotype in which a specific cellular process is abnormal in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal cellular process during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000628 ! abnormal cellular process is_a: FYPO:0001331 ! cellular process phenotype during vegetative growth intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0044763 ! single-organism cellular process intersection_of: qualifier PATO:0000460 ! abnormal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0044763 ! single-organism cellular process relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2012-08-02T14:55:51Z [Term] id: FYPO:0001575 name: abolished vegetative cell population growth def: "A cellular process phenotype in which vegetative cell population growth does not occur, although cells remain viable." [PomBase:mah] comment: This term's primary purpose is to organize terms beneath it in the ontology, and we recommend that it not be used for direct annotations. Please consider using one of the more specific terms, which mention carbon or nitrogen sources, to annotate each phenotype, as cells that do not grow on any media would be considered inviable. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abolished growth of population of viable vegetative cells" EXACT [PomBase:mah] synonym: "abolished vegetative cell population growth, viable cells" EXACT [PomBase:vw] synonym: "vegetative cell population growth abolished" EXACT [PomBase:mah] synonym: "vegetative population growth abolished" EXACT [PomBase:mah] is_a: FYPO:0001355 ! decreased vegetative cell population growth is_a: PATO:0001558 ! lacking processual parts intersection_of: PATO:0001558 ! lacking processual parts intersection_of: towards GO:0072690 ! single-celled organism vegetative growth phase relationship: towards GO:0072690 ! single-celled organism vegetative growth phase created_by: midori creation_date: 2012-09-20T14:52:12Z [Term] id: FYPO:0001703 name: normal mitotic cell cycle checkpoint def: "A cell cycle phenotype in which a specific mitotic cell cycle checkpoint is normal (i.e. indistinguishable from wild type). A cell cycle checkpoint controls cell cycle progression by monitoring the timing and integrity of specific cell cycle events." [GO:0000075, GO:0007093, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "normal cell cycle checkpoint activation" EXACT [PomBase:mah] is_a: FYPO:0000137 ! mitotic cell cycle checkpoint phenotype is_a: FYPO:0001928 ! normal regulation of mitotic cell cycle is_a: FYPO:0002741 ! normal mitotic cell cycle process intersection_of: PATO:0000001 ! quality intersection_of: during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in GO:0007093 ! mitotic cell cycle checkpoint intersection_of: qualifier PATO:0000461 ! normal relationship: during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in GO:0007093 ! mitotic cell cycle checkpoint relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2012-11-07T16:00:24Z [Term] id: FYPO:0001704 name: abnormal mitotic cell cycle checkpoint def: "A cell cycle phenotype in which a specific mitotic cell cycle checkpoint is abnormal. A cell cycle checkpoint normally controls cell cycle progression by monitoring the timing and integrity of specific cell cycle events. In a mutant, the checkpoint may fail to activate under appropriate conditions, or may occur to a greater or lesser extent than wild type under any specified set of conditions." [GO:0000075, GO:0007093, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal mitotic cell cycle checkpoint activation" EXACT [PomBase:mah] is_a: FYPO:0000137 ! mitotic cell cycle checkpoint phenotype is_a: FYPO:0000148 ! abnormal regulation of mitotic cell cycle is_a: FYPO:0002737 ! abnormal mitotic cell cycle process intersection_of: PATO:0000001 ! quality intersection_of: during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0007093 ! mitotic cell cycle checkpoint intersection_of: qualifier PATO:0000460 ! abnormal relationship: during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0007093 ! mitotic cell cycle checkpoint relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2012-11-07T16:03:57Z [Term] id: FYPO:0001720 name: abnormal transport def: "A phenotype in which a specific transport process is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000149 ! transport phenotype is_a: FYPO:0000628 ! abnormal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0006810 ! transport intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0006810 ! transport relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2012-11-08T14:01:10Z [Term] id: FYPO:0001888 name: substance absent from cell def: "A cell phenotype in which the amount of a specific substance measured in a cell is too low to detect." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000991 ! decreased level of substance in cell is_a: PATO:0002000 ! lacks all parts of type is_a: PATO:0002001 ! has fewer parts of type intersection_of: PATO:0002000 ! lacks all parts of type intersection_of: inheres_in CL:0000000 ! cell intersection_of: towards CHEBI:24431 ! chemical entity relationship: inheres_in CL:0000000 ! cell relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2013-01-30T15:19:23Z [Term] id: FYPO:0001985 name: abnormal phenotype def: "A phenotype that shows detectable differences from normal. In fission yeast, the characteristics of wild type cells of the sequenced strain (972 h-) or the isogenic h+ or h90 strains are regarded as normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast abnormal phenotype" EXACT [PomBase:mah] is_a: FYPO:0000001 ! phenotype is_a: PATO:0000001 ! quality intersection_of: PATO:0000001 ! quality intersection_of: inheres_in FYPO:0000001 ! phenotype intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in FYPO:0000001 ! phenotype relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-02-13T15:39:55Z [Term] id: FYPO:0002046 name: resistance to stress def: "A phenotype in which cells in a population show decreased sensitivity to a stress. Typically, a cell population are deemed resistant to a stress if cells in the population grow and divide when exposed to the stress at an intensity at which wild-type cells stop growing (and may die)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Use a descendant of this term if you have assayed growth of cells exposed to a stress in culture. If you have assayed the response to the stress at the subcellular or molecular level, consider annotating to a descendant of 'abnormal cellular response to stress' (FYPO:0000162). subset: qc_do_not_manually_annotate synonym: "resistant to stress" EXACT [PomBase:mah] synonym: "stress resistance: increased" EXACT [SGD:phenotype_annotation] is_a: FYPO:0000139 ! cell population growth phenotype created_by: midori creation_date: 2013-03-14T15:56:42Z [Term] id: FYPO:0002057 name: cell population viability def: "A cell population phenotype that reflects the proportion of the population that survive and develop normally." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate is_a: FYPO:0000003 ! cell population phenotype created_by: midori creation_date: 2013-04-04T13:48:22Z [Term] id: FYPO:0002114 name: transporter activity phenotype def: "A phenotype that affects a transporter activity." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast transporter activity phenotype" EXACT [PomBase:mah] is_a: FYPO:0000652 ! molecular function phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0005215 ! transporter activity relationship: inheres_in GO:0005215 ! transporter activity created_by: midori creation_date: 2013-05-07T13:25:10Z [Term] id: FYPO:0002131 name: RNA binding phenotype def: "A phenotype that affects RNA binding. The relevant gene product may be encoded by the mutated gene, or by a different gene." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast DNA binding phenotype" EXACT [PomBase:mah] is_a: FYPO:0001092 ! binding phenotype intersection_of: FYPO:0000001 ! phenotype intersection_of: inheres_in GO:0003723 ! RNA binding relationship: inheres_in GO:0003723 ! RNA binding created_by: midori creation_date: 2013-05-07T16:56:35Z [Term] id: FYPO:0002333 name: protein localization phenotype def: "A cell phenotype that affects the localization of a protein in a cell." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "cellular protein localization phenotype" EXACT [GO:0034613] synonym: "fission yeast protein localization phenotype" EXACT [PomBase:mah] synonym: "protein localisation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000138 ! localization phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0034613 ! cellular protein localization relationship: inheres_in_part_of GO:0034613 ! cellular protein localization created_by: midori creation_date: 2013-07-05T15:59:48Z [Term] id: FYPO:0002496 name: normal metabolic process def: "A cellular process phenotype in which a cellular metabolic process is normal (i.e. indistinguishable from wild type). A metabolic process is any set of chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances." [GO:0044237, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "normal cellular metabolic process" EXACT [GO:0044237, PomBase:mah] synonym: "normal metabolism" EXACT [GO:0044237, PomBase:mah] is_a: FYPO:0000627 ! normal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0044237 ! cellular metabolic process intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:0044237 ! cellular metabolic process relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2013-08-08T15:51:57Z [Term] id: FYPO:0002549 name: sensitive to stress def: "A phenotype in which cells in a population show increased sensitivity to a stress. Typically, a cell population are deemed sensitive to a stress if cells in the population stop growing (and may die) when exposed to the stress at an intensity that allows a population of wild type cells to grow and divide." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Use a descendant of this term if you have assayed growth of cells exposed to a stress in culture. If you have assayed the response to the stress at the subcellular or molecular level, consider annotating to a descendant of 'abnormal cellular response to stress' (FYPO:0000162). subset: qc_do_not_manually_annotate synonym: "hypersensitive to stress" EXACT [PomBase:mah] synonym: "stress resistance: decreased" EXACT [SGD:phenotype_annotation] is_a: FYPO:0000139 ! cell population growth phenotype created_by: midori creation_date: 2013-08-27T15:46:35Z [Term] id: FYPO:0002734 name: abnormal cell cycle process def: "A cellular process phenotype in which a cell does not execute a cell cycle process normally. A cell cycle process is any of the processes that form part of the cell cycle, and thereby ensures successive accurate and complete genome replication and chromosome segregation." [GO:0022402, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000011 ! abnormal cell cycle intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0022402 ! cell cycle process intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0022402 ! cell cycle process relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-10-01T15:08:57Z [Term] id: FYPO:0002735 name: abnormal cell cycle phase def: "A cellular process phenotype in which a cell does not proceed normally through a specific cell cycle phase. A cell cycle phase is any of the distinct periods or stages into which the cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GO:0022403, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000011 ! abnormal cell cycle intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0022403 ! cell cycle phase intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0022403 ! cell cycle phase relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-10-01T15:09:18Z [Term] id: FYPO:0002736 name: abnormal mitotic cell cycle phase def: "A cellular process phenotype in which a cell does not proceed normally through a specific mitotic cell cycle phase. A mitotic cell cycle phase is any of the distinct periods or stages into which the mitotic cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GO:0022403, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000059 ! abnormal mitotic cell cycle is_a: FYPO:0002735 ! abnormal cell cycle phase intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0022403 ! cell cycle phase intersection_of: part_of GO:0000278 ! mitotic cell cycle intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0022403 ! cell cycle phase relationship: part_of GO:0000278 ! mitotic cell cycle relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-10-01T15:14:48Z [Term] id: FYPO:0002737 name: abnormal mitotic cell cycle process def: "A cellular process phenotype in which a cell does not execute a mitotic cell cycle process normally. A mitotic cell cycle process is any of the processes that form part of the mitotic cell cycle, and thereby ensures successive accurate and complete genome replication and chromosome segregation during the vegetative growth phase of the life cycle." [GO:0022402, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal mitotic cell cycle process during mitotic cell cycle" RELATED [PomBase:mah] synonym: "abnormal mitotic cell cycle process during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000059 ! abnormal mitotic cell cycle is_a: FYPO:0002734 ! abnormal cell cycle process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:1903047 ! mitotic cell cycle process intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:1903047 ! mitotic cell cycle process relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-10-01T15:15:09Z [Term] id: FYPO:0002738 name: abnormal meiotic cell cycle phase def: "A cellular process phenotype in which a cell does not proceed normally through a specific meiotic cell cycle phase. A meiotic cell cycle phase is any of the distinct periods or stages into which the meiotic cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GO:0022403, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000052 ! abnormal meiotic cell cycle is_a: FYPO:0002735 ! abnormal cell cycle phase intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0022403 ! cell cycle phase intersection_of: part_of GO:0051321 ! meiotic cell cycle intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0022403 ! cell cycle phase relationship: part_of GO:0051321 ! meiotic cell cycle relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-10-01T15:16:12Z [Term] id: FYPO:0002739 name: abnormal meiotic cell cycle process def: "A cellular process phenotype in which a cell does not execute a meiotic cell cycle process normally. A meiotic cell cycle process is any of the processes that form part of the meiotic cell cycle, and thereby ensures successive accurate and complete genome replication and meiotic chromosome segregation." [GO:0022402, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000052 ! abnormal meiotic cell cycle is_a: FYPO:0002734 ! abnormal cell cycle process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:1903046 ! meiotic cell cycle process intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:1903046 ! meiotic cell cycle process relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2013-10-01T15:17:46Z [Term] id: FYPO:0002740 name: normal mitotic cell cycle phase def: "A cellular process phenotype in which a cell proceeds normally through a specific mitotic cell cycle phase. A mitotic cell cycle phase is any of the distinct periods or stages into which the mitotic cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GO:0022403, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000411 ! normal mitotic cell cycle is_a: FYPO:0003833 ! normal cell cycle phase intersection_of: PATO:0000001 ! quality intersection_of: during GO:0000278 ! mitotic cell cycle intersection_of: inheres_in GO:0022403 ! cell cycle phase intersection_of: qualifier PATO:0000461 ! normal relationship: during GO:0000278 ! mitotic cell cycle relationship: inheres_in GO:0022403 ! cell cycle phase relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2013-10-01T16:02:38Z [Term] id: FYPO:0002741 name: normal mitotic cell cycle process def: "A cellular process phenotype in which a cell executes a mitotic cell cycle process normally. A mitotic cell cycle process is any of the processes that form part of the mitotic cell cycle, and thereby ensures successive accurate and complete genome replication and chromosome segregation." [GO:1903047, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0000411 ! normal mitotic cell cycle intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:1903047 ! mitotic cell cycle process intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:1903047 ! mitotic cell cycle process relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2013-10-01T16:03:12Z [Term] id: FYPO:0003037 name: abnormal cell phenotype def: "A phenotype that shows detectable differences from normal at the level of an individual cell. In fission yeast, the characteristics of wild type cells of the sequenced strain (972 h-) or the isogenic h+ or h90 strains are regarded as normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal fission yeast cell phenotype" EXACT [PomBase:mah] is_a: FYPO:0000002 ! cell phenotype is_a: FYPO:0001985 ! abnormal phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in FYPO:0000002 ! cell phenotype intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in FYPO:0000002 ! cell phenotype relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2014-01-17T15:10:08Z [Term] id: FYPO:0003478 name: signal transduction phenotype def: "A cellular process phenotype that affects signal transduction. Signal transduction is the process in which a signal is conveyed to trigger a change in the activity or state of a cell. It begins with reception of a signal and ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. A phenotype may affect one or more steps in one or more signal transduction pathways." [GO:0007165, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast signal transduction phenotype" EXACT [PomBase:mah] is_a: FYPO:0000145 ! regulation phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0007165 ! signal transduction relationship: inheres_in_part_of GO:0007165 ! signal transduction created_by: midori creation_date: 2014-07-01T12:26:39Z [Term] id: FYPO:0003755 name: abnormal vegetative cell phenotype def: "A phenotype that shows detectable differences from normal at the level of an individual cell, when the cell is in the vegetative growth phase of the cell cycle. In fission yeast, the characteristics of wild type cells of the sequenced strain (972 h-) or the isogenic h+ or h90 strains are regarded as normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal cell phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "abnormal vegetative cell phenotype during mitotic cell cycle" RELATED [PomBase:mah] synonym: "abnormal vegetative fission yeast cell phenotype" EXACT [PomBase:mah] is_a: FYPO:0001320 ! vegetative cell phenotype is_a: FYPO:0003037 ! abnormal cell phenotype intersection_of: PATO:0000001 ! quality intersection_of: inheres_in FYPO:0001320 ! vegetative cell phenotype intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in FYPO:0001320 ! vegetative cell phenotype relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2014-09-01T17:20:24Z [Term] id: FYPO:0003832 name: normal cell cycle def: "A cellular process phenotype in which cell cycle progression is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "cell cycle progression: normal" EXACT [SGD:phenotype_annotation] synonym: "normal cell cycle progression" EXACT [PomBase:mah] synonym: "normal cell-division cycle" EXACT [GO:0007049, PomBase:mah] is_a: FYPO:0001319 ! normal cellular process during vegetative growth intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in GO:0007049 ! cell cycle intersection_of: qualifier PATO:0000461 ! normal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in GO:0007049 ! cell cycle relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2014-10-15T11:01:20Z [Term] id: FYPO:0003833 name: normal cell cycle phase def: "A cellular process phenotype in which a cell proceeds normally through a specific cell cycle phase. A cell cycle phase is any of the distinct periods or stages into which the cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GO:0022403, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0003832 ! normal cell cycle intersection_of: PATO:0000001 ! quality intersection_of: inheres_in GO:0022403 ! cell cycle phase intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in GO:0022403 ! cell cycle phase relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2014-10-15T11:04:03Z [Term] id: FYPO:0004040 name: mitotic cell cycle arrest phenotype def: "A cell cycle phenotype that affects or involves the normal or abnormal occurrence of mitotic cell cycle arrest. In mitotic cell cycle arrest, progression through the mitotic cell cycle is halted during one of the normal phases (G1, S, G2, or M)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "cell cycle arrest phenotype during mitotic cell cycle" EXACT [PomBase:mah] synonym: "cell cycle arrest phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "fission yeast mitotic cell cycle arrest phenotype" EXACT [PomBase:mah] is_a: FYPO:0001024 ! cell cycle arrest phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in GO:0071850 ! mitotic cell cycle arrest relationship: inheres_in GO:0071850 ! mitotic cell cycle arrest created_by: midori creation_date: 2014-11-27T12:18:23Z [Term] id: FYPO:0004139 name: altered level of substance in cell during nitrogen starvation def: "A cell phenotype in which the amount of a specific substance measured in a cell that is subject to nitrogen starvation differs from normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal level of substance in cell during nitrogen starvation" EXACT [PomBase:mah] is_a: FYPO:0000989 ! altered level of substance in cell intersection_of: PATO:0001159 ! concentrated intersection_of: exists_during GO:0006995 ! cellular response to nitrogen starvation intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:24431 ! chemical entity relationship: exists_during GO:0006995 ! cellular response to nitrogen starvation relationship: inheres_in CL:0000000 ! cell relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:24431 ! chemical entity created_by: midori creation_date: 2014-12-09T12:14:06Z [Term] id: FYPO:0004320 name: altered DNA level def: "A cell phenotype in which the amount of DNA measured in a cell differs from normal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal DNA content" EXACT [PomBase:mah] synonym: "abnormal DNA level" EXACT [PomBase:mah] synonym: "altered cellular DNA level" EXACT [PomBase:mah] is_a: FYPO:0000989 ! altered level of substance in cell intersection_of: PATO:0001159 ! concentrated intersection_of: inheres_in CL:0000000 ! cell intersection_of: qualifier PATO:0000460 ! abnormal intersection_of: towards CHEBI:16991 ! deoxyribonucleic acid relationship: inheres_in CL:0000000 ! cell relationship: qualifier PATO:0000460 ! abnormal relationship: towards CHEBI:16991 ! deoxyribonucleic acid created_by: midori creation_date: 2015-01-21T13:48:16Z [Term] id: FYPO:0004593 name: abnormal vegetative cell phenotype following normal mitosis def: "A phenotype that shows detectable differences from normal at the level of an individual cell, when the cell is in the vegetative growth phase of the cell cycle, and after it has undergone a normal mitotic nuclear division and passed through the subsequent mitotic interphase." [PomBase:mah] comment: This term groups phenotypes that affect the second round of mitosis to take place after a mutation exerts its effect. For example, if a conditional mutant is shifted to restrictive conditions in G1 or S phase and the first mitosis thereafter is normal, but an abnormality arises in the second (even if cells are returned to permissive conditions in the second G1 or S phase), a descendant of this term is applicable. This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "abnormal cell phenotype following normal mitosis during vegetative growth" EXACT [PomBase:mah] synonym: "abnormal vegetative cell phenotype following normal mitosis and interphase" EXACT [PomBase:mah] synonym: "abnormal vegetative cell phenotype following normal mitosis and passage through mitotic G1 phase" EXACT [PomBase:vw] synonym: "abnormal vegetative cell phenotype following normal mitotic nuclear division" EXACT [GO:0007067] synonym: "abnormal vegetative cell phenotype following normal nuclear division during mitotic cell cycle" EXACT [PomBase:mah] is_a: FYPO:0003755 ! abnormal vegetative cell phenotype created_by: midori creation_date: 2015-04-29T15:59:40Z [Term] id: FYPO:0004638 name: abnormal cellular physical quality phenotype def: "A phenotype in which any physical object quality, such as morphology, number, location, etc., of a cell or a cellular component is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal cellular physical object quality" EXACT [PATO:0001241] is_a: FYPO:0000136 ! cellular physical quality phenotype is_a: FYPO:0001985 ! abnormal phenotype intersection_of: PATO:0001241 ! physical object quality intersection_of: inheres_in_part_of GO:0005575 ! cellular_component intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0005575 ! cellular_component relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2015-05-08T14:33:25Z [Term] id: FYPO:0004639 name: abnormal cellular physical quality phenotype during vegetative growth def: "A phenotype observed in the vegetative growth phase of the life cycle in which any physical object quality, such as morphology, number, location, etc., of a cell or a cellular component is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal cellular physical object quality during vegetative growth" EXACT [PomBase:mah] synonym: "abnormal cellular physical quality phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0001321 ! cellular physical quality phenotype during vegetative growth is_a: FYPO:0004638 ! abnormal cellular physical quality phenotype intersection_of: PATO:0001241 ! physical object quality intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0005575 ! cellular_component intersection_of: qualifier PATO:0000460 ! abnormal relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0005575 ! cellular_component relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2015-05-08T15:13:46Z [Term] id: FYPO:0004847 name: transcription phenotype def: "A cellular process phenotype that affects DNA-dependent transcription." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast transcription phenotype" EXACT [PomBase:mah] is_a: FYPO:0000142 ! gene expression phenotype is_a: FYPO:0000294 ! RNA metabolism phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0006351 ! transcription, DNA-templated relationship: inheres_in_part_of GO:0006351 ! transcription, DNA-templated created_by: midori creation_date: 2015-08-26T14:59:27Z [Term] id: FYPO:0004849 name: normal protein metabolic process def: "A cellular process phenotype in which a protein metabolic process is normal (i.e. indistinguishable from wild type). A protein metabolic process is a series of chemical reactions and pathways involving a specific protein." [GO:0019538, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate synonym: "normal cellular protein metabolic process" EXACT [PomBase:mah] synonym: "normal protein metabolism" EXACT [GO:0019538] is_a: FYPO:0000140 ! cellular metabolism phenotype is_a: FYPO:0002496 ! normal metabolic process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0044267 ! cellular protein metabolic process intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in_part_of GO:0044267 ! cellular protein metabolic process relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2015-08-26T15:36:24Z [Term] id: FYPO:0004852 name: RNA transport phenotype def: "A cell process phenotype that affects an RNA transport process." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate is_a: FYPO:0000149 ! transport phenotype is_a: FYPO:0004853 ! RNA localization phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0050658 ! RNA transport relationship: inheres_in_part_of GO:0050658 ! RNA transport created_by: midori creation_date: 2015-08-26T15:52:33Z [Term] id: FYPO:0004853 name: RNA localization phenotype def: "A cell phenotype that affects the localization of an RNA in a cell." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast RNA localization phenotype" EXACT [PomBase:mah] synonym: "RNA localisation phenotype" EXACT [PomBase:mah] is_a: FYPO:0000138 ! localization phenotype intersection_of: FYPO:0000002 ! cell phenotype intersection_of: inheres_in_part_of GO:0006403 ! RNA localization relationship: inheres_in_part_of GO:0006403 ! RNA localization created_by: midori creation_date: 2015-08-26T15:54:27Z [Term] id: FYPO:0004916 name: abnormal regulation of catalytic activity def: "A regulation phenotype observed in the vegetative growth phase of the life cycle in which regulation of a catalytic activity is abnormal." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "abnormal regulation of catalytic activity during mitotic cell cycle" RELATED [PomBase:mah] synonym: "abnormal regulation of catalytic activity during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000682 ! abnormal regulation of molecular function intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0050790 ! regulation of catalytic activity intersection_of: qualifier PATO:0000460 ! abnormal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0050790 ! regulation of catalytic activity relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2015-10-07T14:45:40Z [Term] id: FYPO:0004919 name: normal regulation of molecular function def: "A regulation phenotype observed in the vegetative growth phase of the life cycle in which regulation of a molecular function is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "normal regulation of molecular function during mitotic cell cycle" RELATED [PomBase:mah] synonym: "normal regulation of molecular function during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0000257 ! normal phenotype is_a: FYPO:0001334 ! regulation phenotype during vegetative growth intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0065009 ! regulation of molecular function intersection_of: qualifier PATO:0000461 ! normal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0065009 ! regulation of molecular function relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2015-10-07T14:50:58Z [Term] id: FYPO:0004920 name: normal regulation of catalytic activity def: "A regulation phenotype observed in the vegetative growth phase of the life cycle in which regulation of a catalytic activity is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "normal regulation of catalytic activity during mitotic cell cycle" RELATED [PomBase:mah] synonym: "normal regulation of catalytic activity during vegetative growth" EXACT [PomBase:mah] is_a: FYPO:0004919 ! normal regulation of molecular function intersection_of: PATO:0000001 ! quality intersection_of: happens_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in GO:0050790 ! regulation of catalytic activity intersection_of: qualifier PATO:0000461 ! normal relationship: happens_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in GO:0050790 ! regulation of catalytic activity relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2015-10-07T14:51:58Z [Term] id: FYPO:0005044 name: translation regulation phenotype during vegetative growth def: "A gene expression phenotype that affects the regulation of translation in the vegetative growth phase of the life cycle." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_annotate subset: qc_do_not_manually_annotate synonym: "fission yeast translation regulation phenotype during vegetative growth" EXACT [PomBase:mah] synonym: "translation regulation phenotype during mitotic cell cycle" RELATED [PomBase:mah] is_a: FYPO:0000289 ! translation regulation phenotype is_a: FYPO:0001333 ! gene expression regulation phenotype during vegetative growth intersection_of: exists_during GO:0072690 ! single-celled organism vegetative growth phase intersection_of: inheres_in_part_of GO:0006417 ! regulation of translation relationship: exists_during GO:0072690 ! single-celled organism vegetative growth phase relationship: inheres_in_part_of GO:0006417 ! regulation of translation created_by: midori creation_date: 2015-11-10T12:14:24Z [Term] id: FYPO:0005191 name: normal cellular response to stress def: "A cellular response phenotype in which a cellular response to stress is normal (i.e. indistinguishable from wild type)." [PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. Use a descendant of this term if you have assayed the response to a stress at the subcellular or molecular level. subset: qc_do_not_manually_annotate is_a: FYPO:0000298 ! cellular response phenotype is_a: FYPO:0000627 ! normal cellular process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0033554 ! cellular response to stress intersection_of: qualifier PATO:0000461 ! normal relationship: inheres_in_part_of GO:0033554 ! cellular response to stress relationship: qualifier PATO:0000461 ! normal created_by: midori creation_date: 2016-01-15T11:46:25Z [Term] id: FYPO:0005273 name: abnormal cell cycle phase transition def: "A cellular process phenotype in which a cell does not execute a cell cycle phase transition normally." [GO:0044770, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0002734 ! abnormal cell cycle process intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0044770 ! cell cycle phase transition intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0044770 ! cell cycle phase transition relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2016-02-16T11:34:52Z [Term] id: FYPO:0005274 name: abnormal meiotic cell cycle phase transition def: "A cellular process phenotype in which a cell does not execute a meiotic cell cycle phase transition normally." [GO:0044771, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0002739 ! abnormal meiotic cell cycle process is_a: FYPO:0005273 ! abnormal cell cycle phase transition intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0044771 ! meiotic cell cycle phase transition intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0044771 ! meiotic cell cycle phase transition relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2016-02-16T11:36:17Z [Term] id: FYPO:0005275 name: abnormal mitotic cell cycle phase transition def: "A cellular process phenotype in which a cell does not execute a mitotic cell cycle phase transition normally." [GO:0044772, PomBase:mah] comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype. subset: qc_do_not_manually_annotate is_a: FYPO:0002737 ! abnormal mitotic cell cycle process is_a: FYPO:0005273 ! abnormal cell cycle phase transition intersection_of: PATO:0000001 ! quality intersection_of: inheres_in_part_of GO:0044772 ! mitotic cell cycle phase transition intersection_of: qualifier PATO:0000460 ! abnormal relationship: inheres_in_part_of GO:0044772 ! mitotic cell cycle phase transition relationship: qualifier PATO:0000460 ! abnormal created_by: midori creation_date: 2016-02-16T11:37:08Z