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has_(not)_completed axioms on immune cells might not be accurate #1490

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shawntanzk opened this issue Mar 9, 2022 · 4 comments
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has_(not)_completed axioms on immune cells might not be accurate #1490

shawntanzk opened this issue Mar 9, 2022 · 4 comments
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@shawntanzk
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See oborel/obo-relations#574
I can't remember why this was the case exactly, but @bpeters42 brought this up - perhaps he can explain a bit?

The logical axioms I gave as examples are:
memory T cell has_completed some 'memory T cell differentiation'
immature T cell has_not_completed some 'T cell selection'

@addiehl
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addiehl commented Mar 10, 2022

See my comment about this at oborel/obo-relations#574

@addiehl
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addiehl commented Mar 10, 2022

memory T cell has_completed some 'memory T cell differentiation' does seem circular, but we went to that formulation because the CD45RO isoform that was at one point considered a reliable marker for memory T cells in human and primates, does not appear on so-called TEMRA cells (T effector memory CD45RA-positive T cells), and does not work as a marker for memory T cells in mice either.

My suggestion:
'memory T cell' equivalent to
'mature T cell'
and ('has characteristic' some 'increased life span')
and ('output of' some 'T cell activation involved in immune response')
and ('output of' some 'memory T cell differentiation')

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github-actions bot commented Sep 7, 2022

This issue has not seen any activity in the past 6 months; it will be closed automatically in one year from now if no action is taken.

@shawntanzk
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Closing this, please refer to the linked RO ticket instead

@anitacaron anitacaron closed this as not planned Won't fix, can't repro, duplicate, stale Jan 26, 2023
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