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Replace double-quotes with single-quotes
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GitHub was complaining about "illegal quoting", so this might make it happier.
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@jamesaoverton
jamesaoverton authored Nov 7, 2024
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8 changes: 4 additions & 4 deletions src/ontology/cob-edit.tsv
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Expand Up @@ -51,10 +51,10 @@ GO:0005575 cellular_component owl:Class A location, relative to cellular compart
CL:0000000 cell owl:Class A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. We struggled with this definition. We are worried about circularity. We also considered requiring the capability of metabolism.|CL and GO definitions of cell differ based on inclusive or exclusive of cell wall, etc. FULL in scope & unmodified from CL material entity
PO:0009002 plant cell owl:Class A cell which is a plant structure (PO:0009011). ROOT root of Plant Ontology cell
CL:0001034 cell in vitro owl:Class A cell that is maintained or propagated in a controlled artificial environment for use in an investigation. ROOT root of Cell Ontology cell
COB:0000021 gross anatomical part owl:Class A part of a multicellular organism that is a collection of cell components that are not all contained in one cell. FULL temporarily has a COB ID; waiting on Uberon's "gross anatomical part" term material entity
COB:0000021 gross anatomical part owl:Class A part of a multicellular organism that is a collection of cell components that are not all contained in one cell. FULL temporarily has a COB ID; waiting on Uberon's 'gross anatomical part' term material entity
UBERON:0000465 material anatomical entity owl:Class Anatomical entity that has mass. ROOT GROUP material entity 'cellular anatomical entity' or 'cell' or 'gross anatomical part' or 'organism'
PO:0025131 plant anatomical entity owl:Class An anatomical entity that is or was part of a plant. ROOT GROUP: CHILD material anatomical entity
COB:0000022 organism owl:Class A material entity that is a maximal functionally integrated unit that develops from a program encoded in a genome Includes virus - we will later have a class for cellular organisms.|"Maximal functionally integrated unit" is intended to express unity, which Barry considers synonymous with BFO 'object'. BASE material entity
COB:0000022 organism owl:Class A material entity that is a maximal functionally integrated unit that develops from a program encoded in a genome Includes virus - we will later have a class for cellular organisms.|'Maximal functionally integrated unit' is intended to express unity, which Barry considers synonymous with BFO 'object'. BASE material entity
NCBITaxon:131567 cellular organism owl:Class FULL unmodified & in scope organism
PCO:0000000 collection of organisms owl:Class A material entity that consists of two or more organisms, viruses, or viroids. FULL unmodified & in scope material entity 'has material part' some organism
ENVO:01000813 geophysical entity owl:Class A material part of an astronomical body. FULL in scope & only label modified material entity ENVO calls this 'astronomical body part'
Expand Down Expand Up @@ -93,7 +93,7 @@ COB:has-information-output has information output owl:ObjectProperty REPLACED
COB:capable-of capable of owl:ObjectProperty REPLACED material entity process RO:0002215 capable of
COB:enabled-by enabled by owl:ObjectProperty REPLACED has material participant RO:0002333 enabled by
MOP:0000543 physico-chemical process owl:Class A process in which at least one of the participants is a molecule. This is meant to capture processes that are more fundamental than macromolecular activities FULL in scope, COB injects label process
GO:0003674 gene product or complex activity owl:Class A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. This is the same as GO molecular function FULL unmodified & in scope process physico-chemical process GO's "molecular function"; this subClassOf axioms requires a 'gene product' term: 'enabled by' some ('gene product' or 'protein-containing complex')
GO:0003674 gene product or complex activity owl:Class A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. This is the same as GO molecular function FULL unmodified & in scope process physico-chemical process GO's 'molecular function'; this subClassOf axioms requires a 'gene product' term: 'enabled by' some ('gene product' or 'protein-containing complex')
GO:0008150 biological process owl:Class A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. FULL unmodified & in scope process 'has process part' some 'gene product or complex activity' gene product or complex activity
COB:0001000 exposure of organism owl:Class A process during which an organism comes into contact with another entity. BASE process 'has material participant' some organism
ENVO:02500000 environmental process owl:Class A process in which includes the components of an environmental system as participants. FULL unmodified & in scope process
Expand All @@ -120,7 +120,7 @@ COB:has-specified-information-output has specified information output owl:Object
COB:specified-information-output-of specified information output of owl:ObjectProperty REPLACED has specified information output OBI:0000312 specified output of
A device is the output of a material processing, which is a completely executed planned process.
COB:0000110 material processing owl:Class A planned process that intends to output material entities from input material entities BASE completely executed planned process 'has specified material input' some 'material entity' and 'has specified material output' some 'material entity'
COB:0000026 processed material entity owl:Class A material entity processed by human activity with an intent to produce it. In the COB 2024 workshop there was much disagreement about this label. Suggestions "artifact", "processed or constructed material entity". BASE material entity 'specified material output of' some 'material processing'
COB:0000026 processed material entity owl:Class A material entity processed by human activity with an intent to produce it. In the COB 2024 workshop there was much disagreement about this label. BASE material entity 'specified material output of' some 'material processing'
COB:0001300 device owl:Class A processed material entity which is designed to be capable of a process. BASE processed material entity 'capable of' some process device function
VO:0000001 vaccine owl:Class Material entity that is manufactured to realize the vaccine function. ROOT root of the Vaccine Ontology processed material entity vaccine function
DRON:00000005 drug product owl:Class a material entity (1) containing at least one scattered molecular aggregate as part that is the bearer of an active ingredient role and (2) that is itself the bearer of a clinical drug role ROOT root of the Drug Ontology processed material entity clinical drug function
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