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Named entity recognition (NER) is the very first step in the linguistic processing of any new domain. It is currently a common process in BioNLP on English clinical text. However, it is still in its infancy in other major languages, as it…

Extracting detailed clinical information from free-text medical narratives remains a practical challenge for researchers and healthcare systems. Terminology for immune-mediated and infectious diseases is especially inconsistent across…

Medical information extraction consists of a group of natural language processing (NLP) tasks, which collaboratively convert clinical text to pre-defined structured formats. Current state-of-the-art (SOTA) NLP models are highly integrated…

Unstructured clinical text in EHRs contains crucial information for applications including decision support, trial matching, and retrospective research. Recent work has applied BERT-based models to clinical information extraction and text…

As structured data are often insufficient, labels need to be extracted from free text in electronic health records when developing models for clinical information retrieval and decision support systems. One of the most important contextual…

Rare diseases (RDs) are collectively common and affect 300 million people worldwide. Accurate phenotyping is critical for informing diagnosis and treatment, but RD phenotypes are often embedded in unstructured text and time-consuming to…

Accurate skill extraction from job descriptions is crucial in the hiring process but remains challenging. Named Entity Recognition (NER) is a common approach used to address this issue. With the demonstrated success of large language models…

Objective: The generalizability of clinical large language models is usually ignored during the model development process. This study evaluated the generalizability of BERT-based clinical NLP models across different clinical settings…

Systematic reviews in medicine play a critical role in evidence-based decision-making by aggregating findings from multiple studies. A central bottleneck in automating this process is extracting numeric evidence and determining study-level…

Named entity recognition (NER) is a widely applicable natural language processing task and building block of question answering, topic modeling, information retrieval, etc. In the medical domain, NER plays a crucial role by extracting…

The introduction of Large Language Models (LLMs), and the vast volume of publicly available medical data, amplified the application of NLP to the medical domain. However, LLMs are pretrained on data that are not explicitly relevant to the…

Systemic Functional Grammar and its branch, Cardiff Grammar, have been widely applied to discourse analysis, semantic function research, and other tasks across various languages and texts. However, an automatic annotation system based on…

The Bidirectional Encoder Representations from Transformers (BERT) model has achieved the state-of-the-art performance for many natural language processing (NLP) tasks. Yet, limited research has been contributed to studying its…

Sentence-level relation extraction (RE) aims at identifying the relationship between two entities in a sentence. Many efforts have been devoted to this problem, while the best performing methods are still far from perfect. In this paper, we…

Entity and relation extraction is the necessary step in structuring medical text. However, the feature extraction ability of the bidirectional long short term memory network in the existing model does not achieve the best effect. At the…

Medical consultation dialogues contain critical clinical information, yet their unstructured nature hinders effective utilization in diagnosis and treatment. Traditional methods, relying on rule-based or shallow machine learning techniques,…

Safe and reliable natural language inference is critical for extracting insights from clinical trial reports but poses challenges due to biases in large pre-trained language models. This paper presents a novel data augmentation technique to…

Named-entity recognition (NER) is fundamental to extracting structured information from the >80% of healthcare data that resides in unstructured clinical notes and biomedical literature. Despite recent advances with large language models,…

This work presents our participation in the EvalLLM 2025 challenge on biomedical Named Entity Recognition (NER) and health event extraction in French (few-shot setting). For NER, we propose three approaches combining large language models…

Introduction: Medication prescriptions are often in free text and include a mix of two languages, local brand names, and a wide range of idiosyncratic formats and abbreviations. Large language models (LLMs) have shown promising ability to…