# An Empirical Study on Relation Extraction in the Biomedical Domain

arXiv: https://arxiv.org/abs/2112.05910 · HTML: https://mlsanity.com/paper/2112.05910/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 15 of its 24 references that are in the map.
- First posted on arXiv 11 Dec 2021.

## Builds on (most cited first, 15 of 15)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [BERT: Pre-training of Deep Bidirectional Transformers for Language Understanding](https://mlsanity.com/paper/1810.04805/) (2018)
- [RoBERTa: A Robustly Optimized BERT Pretraining Approach](https://mlsanity.com/paper/1907.11692/) (2019)
- [BioBERT: a pre-trained biomedical language representation model for biomedical text mining](https://mlsanity.com/paper/1901.08746/) (2019)
- [SciBERT: A Pretrained Language Model for Scientific Text](https://mlsanity.com/paper/1903.10676/) (2019)
- [Convolutional Neural Networks for Sentence Classification](https://mlsanity.com/paper/1408.5882/) (2014)
- [Matching the Blanks: Distributional Similarity for Relation Learning](https://mlsanity.com/paper/1906.03158/) (2019)
- [FewRel: A Large-Scale Supervised Few-Shot Relation Classification Dataset with State-of-the-Art Evaluation](https://mlsanity.com/paper/1810.10147/) (2018)
- [DocRED: A Large-Scale Document-Level Relation Extraction Dataset](https://mlsanity.com/paper/1906.06127/) (2019)
- [KagNet: Knowledge-Aware Graph Networks for Commonsense Reasoning](https://mlsanity.com/paper/1909.02151/) (2019)
- [Document-Level Relation Extraction with Adaptive Thresholding and Localized Context Pooling](https://mlsanity.com/paper/2010.11304/) (2020)
- [FewRel 2.0: Towards More Challenging Few-Shot Relation Classification](https://mlsanity.com/paper/1910.07124/) (2019)
- [An Improved Baseline for Sentence-level Relation Extraction](https://mlsanity.com/paper/2102.01373/) (2021)
- [Document-level Relation Extraction as Semantic Segmentation](https://mlsanity.com/paper/2106.03618/) (2021)
- [Learning from Noisy Labels for Entity-Centric Information Extraction](https://mlsanity.com/paper/2104.08656/) (2021)

## Abstract (arXiv)

Relation extraction is a fundamental problem in natural language processing. Most existing models are defined for relation extraction in the general domain. However, their performance on specific domains (e.g., biomedicine) is yet unclear. To fill this gap, this paper carries out an empirical study on relation extraction in biomedical research articles. Specifically, we consider both sentence-level and document-level relation extraction, and run a few state-of-the-art methods on several benchmark datasets. Our results show that (1) current document-level relation extraction methods have strong generalization ability; (2) existing methods require a large amount of labeled data for model fine-tuning in biomedicine. Our observations may inspire people in this field to develop more effective models for biomedical relation extraction.