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Several incompatible syntactic annotation schemes are currently used by parsers and corpora in biomedical information extraction. The recently introduced Stanford dependency scheme has been suggested to be a suitable unifying syntax formalism. In this paper, we present a step towards such unification by creating a conversion from the Link Grammar to the Stanford scheme. Further, we create a version of the BioInfer corpus with syntactic annotation in this scheme. We present an application-oriented evaluation of the transformation and assess the suitability of the scheme and our conversion to the unification of the syntactic annotations of BioInfer and the GENIA Treebank.
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Pyysalo et al. (2007) studied this question.