Integrating K+ Entities into Coreference Resolution on Biomedical Texts.

Abstract

Biomedical Coreference Resolution focuses on identifying the coreferences in biomedical texts, which normally consists of two parts: (i) mention detection to identify textual representation of biological entities and (ii) finding their coreference links. Recently, a popular approach to enhance the task is to embed knowledge base into deep neural networks. However, the way in which these methods integrate knowledge leads to the shortcoming that such knowledge may play a larger role in mention detection than coreference resolution. Specifically, they tend to integrate knowledge prior to mention detection, as part of the embeddings. Besides, they primarily focus on mention-dependent knowledge (KBase), i.e., knowledge entities directly related to mentions, while ignores the correlated knowledge (K+) between mentions in the mention-pair. For mentions with significant differences in word form, this may limit their ability to extract potential correlations between those mentions. Thus, this paper develops a novel model to integrate both KBase and K+ entities and achieves the state-of-the-art performance on BioNLP and CRAFT-CR datasets. Empirical studies on mention detection with different length reveals the effectiveness of the KBase entities. The evaluation on cross-sentence and match/mismatch coreference further demonstrate the superiority of the K+ entities in extracting background potential correlation between mentions.