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geneontology / go-annotation

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PTN000138598 PTN001020335  PTN000158239 mappings to 'response to' terms #3528

Closed ValWood closed 3 years ago

ValWood commented 4 years ago

Please remove:

ptr8 | GO:0009411 | response to UV | IBA with DDB_G0278729 , PTN000138598 , P19447 , FBgn0001179 , locus:2177891 , MGI:95414 , locus:2177901 | Gaudet P et al. (2011) | 25 rad15 |   | IBA with PTN000158239 , P18074 , MGI:95413 , FBgn0261850 , locus:2014525 | Gaudet P et al. (2011) rhp18 |   | IBA with MGI:1890476 , PTN001020335 | Gaudet P et al. (2011)

At pombase we don't annotate "response to terms" because they don't really mean anything unless they relate to a specific stress signalling pathway. For example we have all of these 184 genes annotated to "sensitive to UV" which is essentially what this GO term means: https://www.pombase.org/term/FYPO:0002550 Sensitivities span all. processes https://www.pombase.org/slim:bp_goslim_pombe/from/id/e3e43839-0fb1-4b83-9a41-cd92b29fb59f

so this term is very meaningless. We would use "DNA damage response" if this was narrowed down further, like:

DNA synthesis involved in UV-damage excision repair or regulation of translation involved in cellular response to UV (or as an extension in the absence of a precomposed term).

In general, I don' think cross-species "response to " inferences are safe, but even more I don't think they are useful as GO terms, they are just phenotypes.

marcfeuermann commented 3 years ago

Done for ptr8 and rhp18. Will do the 3rd when PAINT will be available again.