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Candidate annotations are thereby found for a greater number of metabolites (increased coverage), while candidate annotations for each metabolite are fewer and usually include the preferred annotations (increased specificity).
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Under this mode, MAC will output raw haplotype phase information which can be used as the input for any user preferred annotation tool.
High precision is preferred in automatic annotation of protein functions, however.
More specific annotations are preferred over more general ones where there are overlapping annotations.
This has implications for the choice of reference annotation set to be used for estimation: more sensitive annotations, such as Ensembl, which contains 190 243 (release 66) human transcripts, should be preferred over more specific annotations, such as RefSeq [ 15], which contains 50 029 human transcripts, if the aim is to obtain accurate expression estimates.
GATK annotations are preferred if sites are in both call sets.
While computationally predicted annotations within the database should be updated using the new input data, it is usually preferred to keep existing manual annotations even if the computational annotations are more recent.
Examples of boundary disagreement for the gender entity annotations include an annotation of the phrase 'proband's father' rather than 'father' alone; in this case 'father' is the only word denoting the gender and so the shorter annotation is preferred.
This is an additional reason why an orthology-based annotation is preferred over sequence similarity searches, since orthologs as compared to paralogs have a higher tendency to share a similar domain architecture [ 50].
It also seems curation teams for biological databases prefer having an annotation interface locally.
While these types of updates are useful in improving a gene's annotation set, we prefer to prioritize adding novel annotations as opposed to refining existing ones.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com