Opportunities and challenges for ChatGPT and large language models in biomedicine and health

S Tian, Q **, L Yeganova, PT Lai, Q Zhu… - Briefings in …, 2024 - academic.oup.com
ChatGPT has drawn considerable attention from both the general public and domain experts
with its remarkable text generation capabilities. This has subsequently led to the emergence …

A survey on recent advances in named entity recognition

I Keraghel, S Morbieu, M Nadif - arxiv preprint arxiv:2401.10825, 2024 - arxiv.org
Named Entity Recognition seeks to extract substrings within a text that name real-world
objects and to determine their type (for example, whether they refer to persons or …

Advancing entity recognition in biomedicine via instruction tuning of large language models

VK Keloth, Y Hu, Q **e, X Peng, Y Wang… - …, 2024 - academic.oup.com
Abstract Motivation Large Language Models (LLMs) have the potential to revolutionize the
field of Natural Language Processing, excelling not only in text generation and reasoning …

PubTator 3.0: an AI-powered literature resource for unlocking biomedical knowledge

CH Wei, A Allot, PT Lai, R Leaman, S Tian… - Nucleic Acids …, 2024 - academic.oup.com
Abstract PubTator 3.0 (https://www. ncbi. nlm. nih. gov/research/pubtator3/) is a biomedical
literature resource using state-of-the-art AI techniques to offer semantic and relation …

The overview of the BioRED (Biomedical Relation Extraction Dataset) track at BioCreative VIII

R Islamaj, PT Lai, CH Wei, L Luo, T Almeida… - Database, 2024 - academic.oup.com
Abstract The BioRED track at BioCreative VIII calls for a community effort to identify,
semantically categorize, and highlight the novelty factor of the relationships between …

HunFlair2 in a cross-corpus evaluation of biomedical named entity recognition and normalization tools

M Sänger, S Garda, XD Wang, L Weber-Genzel… - …, 2024 - academic.oup.com
Motivation With the exponential growth of the life sciences literature, biomedical text mining
(BTM) has become an essential technology for accelerating the extraction of insights from …

Multi-head CRF classifier for biomedical multi-class named entity recognition on Spanish clinical notes

RAA Jonker, T Almeida, R Antunes, JR Almeida… - Database, 2024 - academic.oup.com
The identification of medical concepts from clinical narratives has a large interest in the
biomedical scientific community due to its importance in treatment improvements or drug …

EnzChemRED, a rich enzyme chemistry relation extraction dataset

PT Lai, E Coudert, L Aimo, K Axelsen, L Breuza… - Scientific Data, 2024 - nature.com
Expert curation is essential to capture knowledge of enzyme functions from the scientific
literature in FAIR open knowledgebases but cannot keep pace with the rate of new …

[HTML][HTML] Augmenting biomedical named entity recognition with general-domain resources

Y Yin, H Kim, X **ao, CH Wei, J Kang, Z Lu… - Journal of Biomedical …, 2024 - Elsevier
Objective Training a neural network-based biomedical named entity recognition (BioNER)
model usually requires extensive and costly human annotations. While several studies have …

Utsa-nlp at chemotimelines 2024: Evaluating instruction-tuned language models for temporal relation extraction

X Zhao, A Rios - Proceedings of the 6th Clinical Natural Language …, 2024 - aclanthology.org
This paper presents our approach for the 2024 ChemoTimelines shared task. Specifically,
we explored using Large Language Models (LLMs) for temporal relation extraction. We …