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From gene names to actual genes

A common task in biomedical text mining is the recognition of gene names. In many applications though, it is important to know whether a gene name refers to the actual gene or to an entity related to it. This paper presents a trainable system to perform this task. It combines syntactic parsing with SVMs and achieves 78.63% accuracy. The training data used were generated automatically by a simple rule-based tagger. Such an approach can be useful to other fields which exhibit similar ambiguity in the way names are used to refer to entities.