update name GO:0002829

[gocentral]

GO:0002829 negative regulation of type 2 immune response

Please could you update name of this term to say:

GO:0002829 negative regulation of T-helper type 2 immune response

to be consistent with other terms

EVELYN: P51683, 14662900

cheers

Evelyn

Reported by: evelync

Original Ticket: geneontology/ontology-requests/8200

[gocentral]

on second thoughts check with Alex, as this term may have been annotated more generally

possible that we need new term: T-helper type 2 immune response as a child of GO:0042092 type 2 immune response..would have to check whats been annotated to it.

Evelyn

Original comment by: evelync

[gocentral]

Evelyn,

For an explanation of the names of this set of terms please see SF 3043868:

https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3043868&group\_id=36855

I do not want the name of this term or its related terms to be changed back, nor do I think it is necessary to add a new "T-helper type 2 immune response" term, which will probably end up confusing annotators.

The point is that immunologists have now recognized that although a type 2 immune response ws originally thought of as a Th2-driven process, in fact these types of immune response are often driven by other cell types as well and the original name was a misnomer. The new name reflects the new thinking. Please read the references cited in the prior SF entry.

However one issue I see is that the synonyms for the regulation terms are not in line with the synonyms for the primary "type 2 immune response" term, which might be the source of some confusion.

Primary term stanza in current GO: [Term] id: GO:0042092 name: type 2 immune response namespace: biological_process def: "An immune response which is associated with resistance to extracellular organisms such as helminths and pathological conditions such as allergy, which is orchestrated by the production of particular cytokines, most notably IL-4, IL-5, IL-10, and IL-13, by any of a variety of cell types including T-helper 2 cells, eosinophils, basophils, mast cells, and nuocytes, resulting in enhanced production of certain antibody isotypes and other effects." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:18000958, PMID:18007680, PMID:20065995, PMID:20200518] synonym: "T-helper 2 type immune response" NARROW [GOC:add] synonym: "Th2 immune response" NARROW [GOC:add] is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains

The NARROW synonyms of GO:0042092 need to be propagated to the regulations terms GO:0002828, GO:0002829, and iGO:0002830..

Also, a second issue is that I see now that the placement of the primary term is still wrong, although I requested it to be moved to be an is_a child of "immune response ; GO:0006955" rather than GO:0002460. See the original SF entry cited above (SF3043868)

Thanks,

Alex

Original comment by: addiehl

[gocentral]

• assigned_to: nobody --> rfoulger

Original comment by: rebeccafoulger

[gocentral]

Thanks for your help Alex. I've editted as you suggest:

Propagated narrow synonyms from 'type 2 immune response ; GO:0042092' to its regulation children: narrow synonym: T-helper 2 type immune response narrow synonym: Th2 immune response regulation of type 2 immune response ; GO:0002828 negative regulation of type 2 immune response ; GO:0002829 positive regulation of type 2 immune response ; GO:0002830

Moved GO:0042092 to be a child of 'immune response ; GO:0006955 rather than 'adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains ; GO:0002460'.

Original comment by: rebeccafoulger

[gocentral]

• status: open --> closed-fixed

Original comment by: rebeccafoulger