| 1. |
- Gawronska, Barbara, et al.
(författare)
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Tracking biological relations in texts : a Referent Grammar based approach
- 2005
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Ingår i: Proceedings of the workshop Biomedical Ontologies and Text Processing, in connection to ECCB/05. ; , s. 15-22
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Konferensbidrag (refereegranskat)abstract
- In this paper, we describe a method for extracting biological relations (in the first place, relations used in the KEGG ontology of biological pathways) from scientific texts. The main assumption is that correct syntactic analysis combined with domain-specific heuristics provides a good basis for relation extraction. We propose an algorithm that searches through the syntactic trees produced by a parser based on a formalism called Referent Grammar (inspired by Categorial Grammar), identifies relations mentioned in the sentence, and classifies them with respect to their semantic class and epistemic status (facts, counterfactuals, hypotheses).
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| 2. |
- Gawronska, Barbara, et al.
(författare)
-
Syntactic, Semantic and Referential Patterns in Biomedical Texts : towards in-depth text comprehension for the purpose of bioinformatics
- 2005
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Ingår i: Natural Language Understanding and Cognitive Science, Proceedings of the 2nd International Workshop on Natural Language Understanding and Cognitive Science, NLUCS 2005, In conjunction with ICEIS 2005, Miami, FL, USA, May 2005. - : INSTICC Press. - 9728865236 - 9789728865238 ; , s. 68-77
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Konferensbidrag (refereegranskat)abstract
- An essential part of bioinformatic research concerns the iterative process of validating hypotheses by analyzing facts stored in databases and in published literature. This process can be enhanced by automatic in-depth text understanding. A prerequisite for this is an adequate syntactic and semantic analysis. The paper presents the results of syntactic, semantic, and textual analysis of a corpus of biomedical abstracts. It focuses on the ways in which relevant molecular interactions are referred to in the abstracts, and proposes a strategy for linking natural language expressions to the standard notation used in Kyoto Encyclopedia of Genes and Genomes. The syntactic and semantic regularities observed in the language of biomedicine are also discussed from the cognitive point of view.
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