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[DRAFT: DO NOT MERGE] Adding electrophys terms #463

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[DRAFT: DO NOT MERGE] Adding electrophys terms #463

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4d8b408
Copied structure of electrophys from ILX
shawntanzk Jan 4, 2022
3a3f0a2
Update pato-edit.obo
shawntanzk Jan 11, 2022
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110 changes: 110 additions & 0 deletions src/ontology/pato-edit.obo
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Expand Up @@ -22249,6 +22249,116 @@ comment: This is distinct from cortical bipolar morphology which has two dendrit
is_a: PATO:0010006 ! cell morphology
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-7258-9596

[Term]
id: PATO:0070044
name: cellular electrophysiological quality
def: "A cellular quality that exists by virtue of the electrical properties of the cell." [WikipediaVersioned:Electrophysiology&oldid=1059385774]
xref: ilxtr:ElectrophysiologicalPhenotype
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ilxtr is not in bioregistry - what is it?

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I've taken it straight from the link @tgbugs gave above (https://github.com/SciCrunch/NIF-Ontology/blob/78f17596d18bd3f1139ea33bbb6b112c97f8162f/ttl/phenotypes.ttl#L303) happy to change it to something else

is_a: PATO:0001396 ! cellular quality

[Term]
id: PATO:0070045
name: spiking phenotype
xref: ilxtr:SpikingPhenotype
is_a: PATO:0070044 ! cellular electrophysiological quality

[Term]
id: PATO:0070046
name: regular spiking non pyramidal phenotype
xref: ilxtr:RegularSpikingNonPyramidalPhenotype
is_a: PATO:0070045 ! spiking phenotype
disjoint_from: PATO:0070059 ! fast spiking phenotype

[Term]
id: PATO:0070047
name: Petilla sustained spiking phenotype
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we don't normally include the name of the terminology system in the term label, unless really necessary for disambiguation.

Why not just "sustained spiking phenotype"

Also should all Petilla terms not have some kind of provenance to https://www.nature.com/articles/nrn2402

(I realize this is a WIP apologies if this is all part of your plan already)

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was hoping provenance would be shown by an xref to that paper in def when that is done. Will also add that xref to the Petilla synonyms.

xref: ilxtr:PetillaSustainedSpikingPhenotype
is_a: PATO:0070045 ! spiking phenotype

[Term]
id: PATO:0070048
name: Petilla initial spiking phenotype
xref: ilxtr:PetillaInitialSpikingPhenotype
is_a: PATO:0070045 ! spiking phenotype
property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0001-7258-9596

[Term]
id: PATO:0070049
name: non-accommodating spiking phenotype
xref: ilxtr:NonAccommodatingSpikingPhenotype
is_a: PATO:0070045 ! spiking phenotype
disjoint_from: PATO:0070050 ! accommodating spiking phenotype

[Term]
id: PATO:0070050
name: accommodating spiking phenotype
xref: ilxtr:AccommodatingSpikingPhenotype
is_a: PATO:0070045 ! spiking phenotype

[Term]
id: PATO:0070051
name: Petilla initial delayed spiking phenotype
synonym: "petilla d" EXACT []
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xref: ilxtr:PetillaInitialDelayedSpikingPhenotype
is_a: PATO:0070048 ! Petilla initial spiking phenotype
disjoint_from: PATO:0070052 ! Petilla initial classical spiking phenotype
disjoint_from: PATO:0070053 ! Petilla initial burst spiking phenotype

[Term]
id: PATO:0070052
name: Petilla initial classical spiking phenotype
synonym: "petilla c" EXACT []
xref: ilxtr:PetillaInitialClassicalSpikingPhenotype
is_a: PATO:0070048 ! Petilla initial spiking phenotype
disjoint_from: PATO:0070053 ! Petilla initial burst spiking phenotype

[Term]
id: PATO:0070053
name: Petilla initial burst spiking phenotype
synonym: "petilla b" EXACT []
xref: ilxtr:PetillaInitialBurstSpikingPhenotype
is_a: PATO:0070048 ! Petilla initial spiking phenotype

[Term]
id: PATO:0070055
name: Petilla sustained stuttering phenotype
synonym: "petilla stut" EXACT []
xref: ilxtr:PetillaSustainedStutteringPhenotype
is_a: PATO:0070047 ! Petilla sustained spiking phenotype
disjoint_from: PATO:0070056 ! Petilla sustained non accommodating phenotype
disjoint_from: PATO:0070057 ! Petilla sustained irregular phenotype
disjoint_from: PATO:0070058 ! Petilla sustained accommodating phenotype

[Term]
id: PATO:0070056
name: Petilla sustained non accommodating phenotype
synonym: "petilla nac" EXACT []
xref: ilxtr:PetillaSustainedNonAccommodatingPhenotype
is_a: PATO:0070047 ! Petilla sustained spiking phenotype
disjoint_from: PATO:0070057 ! Petilla sustained irregular phenotype
disjoint_from: PATO:0070058 ! Petilla sustained accommodating phenotype

[Term]
id: PATO:0070057
name: Petilla sustained irregular phenotype
synonym: "petilla ir" EXACT []
xref: ilxtr:PetillaSustainedIrregularPhenotype
is_a: PATO:0070047 ! Petilla sustained spiking phenotype
disjoint_from: PATO:0070058 ! Petilla sustained accommodating phenotype

[Term]
id: PATO:0070058
name: Petilla sustained accommodating phenotype
synonym: "petilla ac" EXACT []
xref: ilxtr:PetillaSustainedAccommodatingPhenotype
is_a: PATO:0070047 ! Petilla sustained spiking phenotype

[Term]
id: PATO:0070059
name: fast spiking phenotype
xref: ilxtr:FastSpikingPhenotype
is_a: PATO:0070045 ! spiking phenotype

[Term]
id: PATO:0080001
name: quality of a fluid
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