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Annotation score

Last modified April 14, 2015

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome.

It is computed in the following way:

  • The score of an individual entry is the sum of the scores of its annotations.
  • The score of a proteome is the sum of the scores of the entries that are part of the proteome.

The open-ended interval obtained for these absolute numbers is translated into a 5-point-system by splitting it into 5 sub-intervals. Scores in the first interval are represented by “1 point out of 5” , those in the second by “2 points out of 5”, etc. An annotation score of 5 points is therefore associated with the best-annotated entries, and a 1-point-score denotes an entry with rather basic annotation.

There are several contexts in which annotation scores can be used:

  • UniProtKB
    The annotation scores can help you to get a quick idea of the relative level of annotation of the entries in your search results. Please note that search results are not ranked by the annotation score, but by a query score that considers not only the annotation scores of the entries that match your query, but also how often (and where) your query term(s) appear in a matching entry and across the whole database, and the importance of a term according to the total number of terms. For this reason, the best ranked entries are not necessarily those with the highest annotation scores.
  • UniRef
    UniProt is using annotation scores to select the representative member of a UniRef cluster.

Please note that the annotation score cannot be used as a measure of the accuracy of the annotation – as we cannot define the “correct annotation” for any given protein.

See also:
Introducing Annotation Scores in UniProt