Related papers: Intent Detection and Entity Extraction from BioMed…

Named entity recognition (NER) is the process of recognising and classifying important information (entities) in text. Proper nouns, such as a person's name, an organization's name, or a location's name, are examples of entities. The NER is…

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…

Injecting external domain-specific knowledge (e.g., UMLS) into pretrained language models (LMs) advances their capability to handle specialised in-domain tasks such as biomedical entity linking (BEL). However, such abundant expert knowledge…

Biomedical triple extraction systems aim to automatically extract biomedical entities and relations between entities. The exploration of applying large language models (LLM) to triple extraction is still relatively unexplored. In this work,…

Large language models (LLMs) have demonstrated remarkable versatility across a wide range of natural language processing tasks and domains. One such task is Named Entity Recognition (NER), which involves identifying and classifying proper…

The massive scale and growth of textual biomedical data have made its indexing and classification increasingly important. However, existing research on this topic mainly utilized convolutional and recurrent neural networks, which generally…

Here we present the training and evaluation of NanoNER, a Named Entity Recognition (NER) model for Nanobiology. NER consists in the identification of specific entities in spans of unstructured texts and is often a primary task in Natural…

Named Entity Recognition (NER) aims to extract and classify entity mentions in the text into pre-defined types (e.g., organization or person name). Recently, many works have been proposed to shape the NER as a machine reading comprehension…

Language model (LM) pretraining has led to consistent improvements in many NLP downstream tasks, including named entity recognition (NER). In this paper, we present T-NER (Transformer-based Named Entity Recognition), a Python library for…

This paper presents a framework for Named Entity Recognition (NER) leveraging the Bidirectional Encoder Representations from Transformers (BERT) model in natural language processing (NLP). NER is a fundamental task in NLP with broad…

The Biocreative VII Track-2 challenge consists of named entity recognition, entity-linking (or entity-normalization), and topic indexing tasks -- with entities and topics limited to chemicals for this challenge. Named entity recognition is…

We hypothesize that large language models (LLMs) based on the transformer architecture can enable automated detection of clinical phenotype terms, including terms not documented in the HPO. In this study, we developed two types of models:…

FDA Medical Device recalls are critical and time-sensitive events, requiring swift identification of impacted devices to inform the public of a recall event and ensure patient safety. The OpenFDA device recall dataset contains valuable…

Pretraining large neural language models, such as BERT, has led to impressive gains on many natural language processing (NLP) tasks. However, most pretraining efforts focus on general domain corpora, such as newswire and Web. A prevailing…

Scarcity of data and technological limitations for resource-poor languages in developing countries like India poses a threat to the development of sophisticated NLU systems for healthcare. To assess the current status of various…

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…

Biomedical Named Entity Recognition (NER) is a challenging problem in biomedical information processing due to the widespread ambiguity of out of context terms and extensive lexical variations. Performance on bioNER benchmarks continues to…

The rising prevalence of mental health disorders necessitates the development of robust, automated tools for early detection and monitoring. Recent advances in Natural Language Processing (NLP), particularly transformer-based architectures,…

Social telehealth has revolutionized healthcare by enabling patients to share symptoms and receive medical consultations remotely. Users frequently post symptoms on social media and online health platforms, generating a vast repository of…

Automated knowledge curation for biomedical ontologies is key to ensure that they remain comprehensive, high-quality and up-to-date. In the era of foundational language models, this study compares and analyzes three NLP paradigms for…