Can Language Models be Biomedical Knowledge Bases?

Mujeen Sung, Jinhyuk Lee, Sean S. Yi, Minji Jeon, Sungdong Kim, Jaewoo Kang

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

Abstract

Pre-trained language models (LMs) have become ubiquitous in solving various natural language processing (NLP) tasks. There has been increasing interest in what knowledge these LMs contain and how we can extract that knowledge, treating LMs as knowledge bases (KBs). While there has been much work on probing LMs in the general domain, there has been little attention to whether these powerful LMs can be used as domain-specific KBs. To this end, we create the BIOLAMA benchmark, which is comprised of 49K biomedical factual knowledge triples for probing biomedical LMs. We find that biomedical LMs with recently proposed probing methods can achieve up to 18.51% Acc@5 on retrieving biomedical knowledge. Although this seems promising given the task difficulty, our detailed analyses reveal that most predictions are highly correlated with prompt templates without any subjects, hence producing similar results on each relation and hindering their capabilities to be used as domain-specific KBs. We hope that BIOLAMA can serve as a challenging benchmark for biomedical factual probing.

Original languageEnglish
Title of host publicationEMNLP 2021 - 2021 Conference on Empirical Methods in Natural Language Processing, Proceedings
PublisherAssociation for Computational Linguistics (ACL)
Pages4723-4734
Number of pages12
ISBN (Electronic)9781955917094
Publication statusPublished - 2021
Event2021 Conference on Empirical Methods in Natural Language Processing, EMNLP 2021 - Virtual, Punta Cana, Dominican Republic
Duration: 2021 Nov 72021 Nov 11

Publication series

NameEMNLP 2021 - 2021 Conference on Empirical Methods in Natural Language Processing, Proceedings

Conference

Conference2021 Conference on Empirical Methods in Natural Language Processing, EMNLP 2021
Country/TerritoryDominican Republic
CityVirtual, Punta Cana
Period21/11/721/11/11

ASJC Scopus subject areas

  • Computational Theory and Mathematics
  • Computer Science Applications
  • Information Systems

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