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It is worth noting, however, that 3′ UTRs, in particular, may be poorly annotated in the rhesus genome and difficult to comprehensively interrogate.
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However, protein complex information has been poorly annotated in these resources.
Unfortunately, this transcript is poorly annotated in the current porcine genome assembly (Sscrofa 10.2).
Grapevine NRT1 gene family members were poorly annotated in functional databases.
Within gene bodies, eQTL were particularly likely to be detected near transcription end sites; this potentially reflects enrichment in 3′ untranslated regions, which are poorly annotated in baboon.
Since Pyrococcus furiosus PTMs are poorly annotated in the Uniprot database, ProSightPC failed to assign many of the PTMs in our data set.
However, when ppiPre is used on a large amount of proteins that are poorly annotated in GO, users should consider that the performance of ppiPre may be hampered under such situation.
For example, BGIBMGA003910-PA, which is poorly annotated in the silkworm database, has orthologus in other insects (such as monarch butterfly, Danaus plexippus, Heliconius melpomene, Dendroctonus ponderosae, Nasonia vitripennis), but the identity was much higher in Lepidoptera (Additional file 10).
However, most members of this gene cluster were poorly annotated in the silkworm database, indicating that the functional information on the genes in CNVs has been very limited to date.
Exceptions might be transcripts that are non-correlated to the sense strand, and where the sense strand is poorly annotated, i.e. in cases of annotation on the wrong strand.
If genes are missing or poorly annotated in the reference GenBank file, the Plann output will also be missing genes and be poorly annotated.
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