Pre-trained language models in biomedical domain: A systematic survey

B Wang, Q Xie, J Pei, Z Chen, P Tiwari, Z Li… - ACM Computing …, 2023 - dl.acm.org
Pre-trained language models (PLMs) have been the de facto paradigm for most natural
language processing tasks. This also benefits the biomedical domain: researchers from …

Paradigm shift in natural language processing

TX Sun, XY Liu, XP Qiu, XJ Huang - Machine Intelligence Research, 2022 - Springer
In the era of deep learning, modeling for most natural language processing (NLP) tasks has
converged into several mainstream paradigms. For example, we usually adopt the …

A survey on deep learning event extraction: Approaches and applications

Q Li, J Li, J Sheng, S Cui, J Wu, Y Hei… - … on Neural Networks …, 2022 - ieeexplore.ieee.org
Event extraction (EE) is a crucial research task for promptly apprehending event information
from massive textual data. With the rapid development of deep learning, EE based on deep …

Joint biomedical entity and relation extraction with knowledge-enhanced collective inference

T Lai, H Ji, CX Zhai, QH Tran - arXiv preprint arXiv:2105.13456, 2021 - arxiv.org
Compared to the general news domain, information extraction (IE) from biomedical text
requires much broader domain knowledge. However, many previous IE methods do not …

A survey on event extraction for natural language understanding: Riding the biomedical literature wave

G Frisoni, G Moro, A Carbonaro - IEEE Access, 2021 - ieeexplore.ieee.org
Motivation: The scientific literature embeds an enormous amount of relational knowledge,
encompassing interactions between biomedical entities, like proteins, drugs, and symptoms …

The devil is in the details: On the pitfalls of event extraction evaluation

H Peng, X Wang, F Yao, K Zeng, L Hou, J Li… - arXiv preprint arXiv …, 2023 - arxiv.org
Event extraction (EE) is a crucial task aiming at extracting events from texts, which includes
two subtasks: event detection (ED) and event argument extraction (EAE). In this paper, we …

PHEE: A dataset for pharmacovigilance event extraction from text

Z Sun, J Li, G Pergola, BC Wallace, B John… - arXiv preprint arXiv …, 2022 - arxiv.org
The primary goal of drug safety researchers and regulators is to promptly identify adverse
drug reactions. Doing so may in turn prevent or reduce the harm to patients and ultimately …

A survey of the recent trends in deep learning for literature based discovery in the biomedical domain

E Cesario, C Comito, E Zumpano - Neurocomputing, 2024 - Elsevier
Every day, enormous amounts of biomedical texts discussing various biomedical topics are
produced. Revealing strong semantic connections hidden in those unstructured data is …

[PDF][PDF] Fine-grained information extraction from biomedical literature based on knowledge-enriched abstract meaning representation

Z Zhang, NN Parulian, H Ji, AS Elsayed… - Proc. The Joint …, 2021 - par.nsf.gov
Abstract Biomedical Information Extraction from scientific literature presents two unique and
nontrivial challenges. First, compared with general natural language texts, sentences from …

Training multimedia event extraction with generated images and captions

Z Du, Y Li, X Guo, Y Sun, B Li - … of the 31st ACM International Conference …, 2023 - dl.acm.org
Contemporary news reporting increasingly features multimedia content, motivating research
on multimedia event extraction. However, the task lacks annotated multimodal training data …