This page lists special curation issues
Decision in August, 2014, to annotate (literature topics, maybe GO) genes of each RTE or TE class that are most representative. E.g., in PMID:24369430 it's reported that DIRS1 RTEs are upregulated in the rrpC mutant. Annotated (literature and in GO extension) are DDB_G0267260 (ORF1), DDB_G0267258 (ORF2 fragment), DDB_G0267338 (ORF3) as representatives of the 3 DIRS1 ORFs. These are among the longest and all in Crick direction. List here all classes with representative genes:
- DIRS1 / RTE: DDB_G0267260, DDB_G0267258, DDB_G0267338
Decision on 2/15/2010 to annotate actin when a paper has important information about actin. Annotations are made as literature topics and GO. We'll annotate the 17 identical actins as well as the three actins that are very similar to those. Paste the following line into the Literature tool:
For Protein2GO, there is one UniProt ID for the 17 identical, and 3 IDs for the 3 similar; add annotation to one of the 4 ids, then copy annotation to 3 others, all separated by a comma:
P07830, Q54GX7, Q553U6, P07829
Petra and Bob discussed actin annotations and associating papers to actin genes. Only associate papers to actin if actin itself has been the target of experiments, i.e. not if actin is used as a reference or an analytical tool. However, if authors demonstrate binding of another protein with actin, this should be associated.
Literature and GO annotation is easy in bulk, but strain and phenotype annotations are not. Accordingly, strain and phenotype annotations would need to be submitted to Yulia to add in bulk to all actin genes. But phenotype annotations should be rare.
Literature and GO annotation tools have changed. GO needs to be copied to just 4 UniProt IDs in the GOa tool, as all identical actins are in one entry; Litrature need to paste gene IDs.pf
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