5– 7 We are developing systems that will perform such recognition automatically. 2– 4 Recognizing the full forms associated with abbreviations is important for identifying the meaning of an abbreviation, which in turn facilitates natural language processing of, and information retrieval from, the literature.
1 The names of many clinical diseases and procedures, and of common terms in the basic sciences, have widely used abbreviations. To couple AbbRE with abbreviation databases for the mapping of undefined abbreviations, not only exhaustive abbreviation databases but also a method to resolve the ambiguity of abbreviations in the databases are needed.Ībbreviations and acronyms are commonly used in biomedical literature. They also found that many abbreviations are ambiguous (i.e., they map to more than one full form in abbreviation databases).Ĭonclusion: AbbRE is efficient for mapping defined abbreviations. The authors found that an average of 25 percent of abbreviations were defined in biomedical articles and that of a randomly selected subset of undefined abbreviations, 68 percent could be mapped to any of four abbreviation databases. Results: AbbRE had an average 0.70 recall and 0.95 precision for the defined abbreviations. They also measured the percentage of undefined abbreviations in the same set of articles, and they investigated whether they could map undefined abbreviations to any of four public abbreviation databases (GenBank LocusLink, swissprot, LRABR of the UMLS Specialist Lexicon, and Bio abacus). Using the opinions of domain experts as a reference standard, they evaluated the recall and precision of AbbRE for defined abbreviations in ten biomedical articles randomly selected from the ten most frequently cited medical and biological journals. For defined abbreviations, they developed a set of pattern-matching rules to map an abbreviation to its full form and implemented the rules into a software program, AbbRE (for “abbreviation recognition and extraction”). Methods: The authors developed two methods of mapping defined and undefined abbreviations (defined abbreviations are paired with their full forms in the articles, whereas undefined ones are not). Objective: To develop methods that automatically map abbreviations to their full forms in biomedical articles.
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