Biomedical Information Extraction with Predicate-Argument Structure Patterns Export

@article{citeulike:2143223, abstract = {Due to the ever growing amount of publications, Information Extraction (IE) from text is increasingly is recognized as one of crucial technologies in bioinformatics. However, for IE to be practically applicable, adaptability/portability of a system is crucial, considering extremely diverse demands in biomedical IE application. We should be able to construct a set of ” extraction rules” adapted for a specific application at low cost. We propose a new method for automatic construction of application-specific extraction rules, which effectively utilizes predicate-argument structures (PASs) produced by a full-parser. By dividing labor between generic linguistic rules in the parser and application-specific extraction rules to be constructed from scratch, this method facilitates acquisition of extraction rules from a relatively small annotated corpus. We conducted an experiment in which the method was applied to extraction of protein-protein interaction. The result shows that, though the current version of the construction algorithm is straightforward, the performance is remarkably promising, comparable with those obtained by manual-made extraction rules or those obtained by rules generalized by machine learning techniques.}, author = {Yakushiji, Akane and Miyao, Yusuke and Tateisi, Yuka and Tsujii, Jun'ichi}, citeulike-article-id = {2143223}, citeulike-linkout-0 = {http://www-tsujii.is.s.u-tokyo.ac.jp/~akane/papers/SMBM2005_yakushiji.pdf}, keywords = {article1, bionlp, pas}, posted-at = {2007-12-18 23:39:32}, priority = {2}, title = {Biomedical Information Extraction with Predicate-Argument Structure Patterns}, url = {http://www-tsujii.is.s.u-tokyo.ac.jp/~akane/papers/SMBM2005_yakushiji.pdf}, year = {2005} }

TY - JOUR ID - citeulike:2143223 L3 - citeulike-article-id:2143223 N2 - Due to the ever growing amount of publications, Information Extraction (IE) from text is increasingly is recognized as one of crucial technologies in bioinformatics. However, for IE to be practically applicable, adaptability/portability of a system is crucial, considering extremely diverse demands in biomedical IE application. We should be able to construct a set of “extraction rules” adapted for a specific application at low cost. We propose a new method for automatic construction of application-specific extraction rules, which effectively utilizes predicate-argument structures (PASs) produced by a full-parser. By dividing labor between generic linguistic rules in the parser and application-specific extraction rules to be constructed from scratch, this method facilitates acquisition of extraction rules from a relatively small annotated corpus. We conducted an experiment in which the method was applied to extraction of protein-protein interaction. The result shows that, though the current version of the construction algorithm is straightforward, the performance is remarkably promising, comparable with those obtained by manual-made extraction rules or those obtained by rules generalized by machine learning techniques. TI - Biomedical Information Extraction with Predicate-Argument Structure Patterns KW - article1 KW - bionlp KW - pas AU - Yakushiji, Akane AU - Miyao, Yusuke AU - Tateisi, Yuka AU - Tsujii, Jun’ichi PY - 2005/// UR - http://www-tsujii.is.s.u-tokyo.ac.jp/~akane/papers/SMBM2005_yakushiji.pdf ER -