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Exact(2)
Although, the above examples indicate the possibility of annotation of hypothetical proteins clustering closely to the proteins of known function, this extrapolation of function based on clustering may not always hold true.
Because the exclusion of a single pathovar from an "almost-core" OG necessarily excludes that gene from the core set as defined above, all 969 OGs that had a member protein in 26 of the 27 genomes were further scrutinized to ensure the nonexistence of an ortholog in the nonparticipating genome, using tBLASTn to account for the possibility of annotation errors.
Similar(58)
In order to exclude any possibility of wrong annotation the majority of the differentially expressed genes, in particular those of major interest were sequenced.
Yet, the possibility of dubious annotation of the predicted protein-coding genes and intergenic regions in Vector Base cannot be excluded.
Thus the possibility of wrong annotation for LOC_Os02g54280, as like LOC_Os02g54290, was high as it was highly similar to AtBRU1 (1.1e-141.041.0% identity and 67.3% similar) and also contained all conserved domains.
> In contrast to the comparison of manual annotations, our evaluation of the appropriateness of the annotations was expected to give a better estimate of precision (how many of the annotations are correct), but not of recall (the possibility of 'missing' annotations was not considered in this phase).
We rigorously assessed the possibility of including annotations based on ISS as this accounts for a considerably number of annotations and could conclude that the low reliability of these annotations does not pose a problem to our approach (see Additional file 4; Additional file 5; see Results).
The database runs in parallel to the central archive, and incorporates user comments in a semi-structured way, allowing for the possibility of incorporating annotations back into the PDB.
A further advantage is the promising possibility for annotation and linking of inferred non-neutral markers to important biological functions or biochemical processes, especially if a reference genome is available.
The searches were not restricted to intergenic regions because of the possibility of incorrect automated annotation of genes.
Owing to the possibility of missannotation, gene annotation of the DE genes was confirmed from the available sequence used by Affymetrix to design the probes in the array.
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