Open ValWood opened 1 year ago
in progress curs/291d614ef0c90bc4
@PCarme a heads up that I changed ypa2 to regulation of SIN signalling, so it should fit into your model, I'm not sure how?
Probably through the SIP complex which contains other PP2A subunits and dephosphorylates Cdc11 via Ppa3. I will have to search for the missing link there.
I had this hanging around on my desktop:
So the MOR might also be relevant for inhibition ....
I just noticed that this paper is listed in the literature category on the ppa3 gene page
although it contains no annotations regarding ppa3, which is only mentioned in the introduction.
We only began to do this gene extraction from publications recently. I guess this is because we get this info from the PubMed metadata (I gues ppa3 must be included in the keywords). We did decide (although I can't remember if a ticket was opened), that once a publication is curated in PomBAse, we could default to the gene list from Canto (which would remove this type of anomaly, in addition to the problem when a gene has conflicting names.
I will open a ticket for this if there isn't one. Opening this as a reminder.
@kimrutherford
Although it's a bit weird because
does not retrieve ANY fission yeast ppa3 publications???
This is strange. It looks like the searchbar has a problem with ppa3 in pombe.
And searching for ppa3 AND yeast only finds this paper about a plant protein (with some data with expression in yeast). https://pubmed.ncbi.nlm.nih.gov/29691313/
Are there any true positives for ppa3? Part of the problem might be that people never call it ppa3 they call it PPA2 because its PPA2 catalytic subunit. I can't find a paper the uses ppa3.
This doesn't explain why ppa3 appears in the list, but it might be in the keywords for the paper, in which case it would appear, regardless of whether it has any annotation. The list, until recently was based on only curated papers, but recently we included anything PubMed retrieved.
Are there any true positives for ppa3? Part of the problem might be that people never call it ppa3 they call it PPA2 because its PPA2 catalytic subunit. I can't find a paper the uses ppa3.
You're right, I can't find a single pombe paper with ppa3 in either the title or abstract.
Ypa1, Ypa2
GO:0023057 negative regulation of SIN signalling GO:0008160 protein tyrosine phosphatase activator activity EXP PMID:22267499 prioritise