Related papers: Disease Entity Recognition and Normalization is Im…

When performing named entity recognition (NER), entity length is variable and dependent on a specific domain or dataset. Pre-trained language models (PLMs) are used to solve NER tasks and tend to be biased toward dataset patterns such as…

Accurate recognition of biomedical named entities is critical for medical information extraction and knowledge discovery. However, existing methods often struggle with nested entities, entity boundary ambiguity, and cross-lingual…

Based on official estimates, 50 million people worldwide are affected by dementia, and this number increases by 10 million new patients every year. Without a cure, clinical prognostication and early intervention represent the most effective…

Large Language Models (LLMs) have demonstrated strong reasoning capabilities across various tasks. However, even minor variations in query phrasing, despite preserving the underlying semantic meaning, can significantly affect their…

Machine learning (ML) holds great promise for clinical applications but is often hindered by limited access to high-quality data due to privacy concerns, high costs, and long timelines associated with clinical trials. While large language…

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…

Despite their strong linguistic capabilities, Large Language Models (LLMs) are computationally demanding and require substantial resources for fine-tuning, which is unadapted to privacy and budget constraints of many healthcare settings. To…

In the field of Natural Language Processing (NLP), Named Entity Recognition (NER) is recognized as a critical technology, employed across a wide array of applications. Traditional methodologies for annotating datasets for NER models are…

Large Language Models (LLMs) have made remarkable advancements in the field of natural language processing. However, their increasing size poses challenges in terms of computational cost. On the other hand, Small Language Models (SLMs) are…

Large Language Models (LLMs) like GPT-4o can help automate text classification tasks at low cost and scale. However, there are major concerns about the validity and reliability of LLM outputs. By contrast, human coding is generally more…

We present a statistical model for German medical natural language processing trained for named entity recognition (NER) as an open, publicly available model. The work serves as a refined successor to our first GERNERMED model which is…

Biomedical named entity recognition (NER) presents unique challenges due to specialized vocabularies, the sheer volume of entities, and the continuous emergence of novel entities. Traditional NER models, constrained by fixed taxonomies and…

Backgrounds: Information extraction (IE) is critical in clinical natural language processing (NLP). While large language models (LLMs) excel on generative tasks, their performance on extractive tasks remains debated. Methods: We…

Aligning terminological resources, including ontologies, controlled vocabularies, taxonomies, and value sets is a critical part of data integration in many domains such as healthcare, chemistry, and biomedical research. Entity mapping is…

Generative large language models (LLMs) are a promising alternative to pre-trained language models for entity matching due to their high zero-shot performance and ability to generalize to unseen entities. Existing research on using LLMs for…

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…

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,…

Entity Linking (EL), the task of mapping textual entity mentions to their corresponding entries in knowledge bases, constitutes a fundamental component of natural language understanding. Recent advancements in Large Language Models (LLMs)…

Synthetic data generation using large language models (LLMs) demonstrates substantial promise in addressing biomedical data challenges and shows increasing adoption in biomedical research. This study systematically reviews recent advances…

Recent advancements in large language models (LLMs) have led to the development of highly potent models like OpenAI's ChatGPT. These models have exhibited exceptional performance in a variety of tasks, such as question answering, essay…