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Clustering-based Inference for Biomedical Entity Linking - 2021

Research Area:  Machine Learning

Abstract:

Due to large number of entities in biomedical knowledge bases, only a small fraction of entities have corresponding labelled training data. This necessitates entity linking models which are able to link mentions of unseen entities using learned representations of entities. Previous approaches link each mention independently, ignoring the relationships within and across documents between the entity mentions. These relations can be very useful for linking mentions in biomedical text where linking decisions are often difficult due mentions having a generic or a highly specialized form. In this paper, we introduce a model in which linking decisions can be made not merely by linking to a knowledge base entity but also by grouping multiple mentions together via clustering and jointly making linking predictions. In experiments on the largest publicly available biomedical dataset, we improve the best independent prediction for entity linking by 3.0 points of accuracy, and our clustering-based inference model further improves entity linking by 2.3 points.

Author(s) Name:  Rico Angell, Nicholas Monath, Sunil Mohan, Nishant Yadav, Andrew McCallum

Journal name:  

Conferrence name:  Proceedings of the 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies

Publisher name:  ACL

DOI:  10.18653/v1/2021.naacl-main.205

Volume Information:  2021,Pages:2598–2608