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obophenotype / developmental-stage-ontologies

Source files for various species-specific stage ontologies
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NTR: HsapDv '90 year-old and over human stage' #77

Open jahilton opened 3 years ago

jahilton commented 3 years ago

Per HIPAA Privacy Rule, age must be removed for individuals over the age of 89. ref: https://privacyruleandresearch.nih.gov/pr_08.asp#:~:text=All%20elements%20of%20dates%20(except,90%20or%20older For some metadata systems, this will result in many individuals classified as "90 or over". Is this enough to support adding a new term that is more accurate to those cases than any existing term?

If so, I would propose the following information for the new term... label: 90 year-old and over human stage description: Aged stage that refers to an adult who is over 90. start, years post birth: 90.0 subclass_of: 'human life cycle stage' part_of: some '80 year-old and over human stage'

jahilton commented 6 months ago

Hi @ANiknejad , have you had a chance to look at the possibility of adding this term?

ANiknejad commented 6 months ago

Hi Jason,

Sorry for late answer. Actually we created decades in our hsapdv.obo ontology to hide the precise age of human samples, to accomodate GTEx decade public annotations. But thank you to make us aware about the special case of 'all ages over 89'. I will create the new class you suggest, and this class will be parent of the existing classes: HsapDv:0000244 name: tenth decade stage HsapDv:0000245 name: eleventh decade stage

Thank you again!

Anne

ANiknejad commented 6 months ago

@jahilton

DONE, please see https://github.com/obophenotype/developmental-stage-ontologies/blob/develop/src/hsapdv/hsapdv.obo

I hope, this fits your expectations, please let me know Cheers, Anne

[Term] id: HsapDv:0000274 name: 90 year-old and over stage namespace: human_developmental_stage def: "Human stage that refers to an adult who is over 90." [https://github.com/jahilton] is_a: HsapDv:0000000 ! life cycle stage relationship: preceded_by HsapDv:0000243 ! ninth decade stage relationship: part_of HsapDv:0000095 ! 80 year-old and over stage property_value: start_ypb "90.0" xsd:float

fbastian commented 6 months ago

Ok we should make a new formal release for this.

ANiknejad commented 6 months ago

done on /develop branch so far, yes

jahilton commented 5 months ago

Perfect. TY!

jahilton commented 1 month ago

Looks like this didn't make it into the May release Would be wonderful if this term was included in the next release - CELLxGENE schema will finally update HsapDv/MmusDv versions with our next version

fbastian commented 1 month ago

PR created https://github.com/obophenotype/developmental-stage-ontologies/pull/96/ Waiting on @matentzn to let me know what is the status of reenabling builds and releases automatically.