A Dataset for N-ary Relation Extraction of Drug Combinations
Aryeh Tiktinsky, Vijay Viswanathan, Danna Niezni, Dana Meron Azagury, Yosi Shamay, Hillel Taub-Tabib, Tom Hope, Yoav Goldberg
Abstract
Combination therapies have become the standard of care for diseases such as cancer, tuberculosis, malaria and HIV. However, the combinatorial set of available multi-drug treatments creates a challenge in identifying effective combination therapies available in a situation. To assist medical professionals in identifying beneficial drug-combinations, we construct an expert-annotated dataset for extracting information about the efficacy of drug combinations from the scientific literature. Beyond its practical utility, the dataset also presents a unique NLP challenge, as the first relation extraction dataset consisting of variable-length relations. Furthermore, the relations in this dataset predominantly require language understanding beyond the sentence level, adding to the challenge of this task. We provide a promising baseline model and identify clear areas for further improvement. We release our dataset (https://huggingface.co/datasets/allenai/drug-combo-extraction), code (https://github.com/allenai/drug-combo-extraction) and baseline models (https://huggingface.co/allenai/drug-combo-classifier-pubmedbert-dapt) publicly to encourage the NLP community to participate in this task.
BibTeX
@inproceedings{tiktinsky-etal-2022-dataset,
title = "A Dataset for N-ary Relation Extraction of Drug Combinations",
author = "Tiktinsky, Aryeh and
Viswanathan, Vijay and
Niezni, Danna and
Meron Azagury, Dana and
Shamay, Yosi and
Taub-Tabib, Hillel and
Hope, Tom and
Goldberg, Yoav",
editor = "Carpuat, Marine and
de Marneffe, Marie-Catherine and
Meza Ruiz, Ivan Vladimir",
booktitle = "Proceedings of the 2022 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies",
month = jul,
year = "2022",
address = "Seattle, United States",
publisher = "Association for Computational Linguistics",
url = "https://aclanthology.org/2022.naacl-main.233/",
doi = "10.18653/v1/2022.naacl-main.233",
pages = "3190--3203"
}