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Background Medical and life science research generates millions of publications, and it is a great challenge for researchers to utilize this information in full since its scale and complexity greatly surpasses human reading capabilities.…

The rapidly increasing volume of electronic health record (EHR) data underscores a pressing need to unlock biomedical knowledge from unstructured clinical texts to support advancements in data-driven clinical systems, including patient…

Named Entity Recognition (NER) is a critical component of Natural Language Processing with diverse applications in information extraction and conversational AI. However, NER in specific domains for low-resource languages faces challenges…

Nested Named Entity Recognition (NNER) focuses on addressing overlapped entity recognition. Compared to Flat Named Entity Recognition (FNER), annotated resources are scarce in the corpus for NNER. Data augmentation is an effective approach…

Named entity recognition (NER) is a fundamental task in natural language processing that involves identifying and classifying entities in sentences into pre-defined types. It plays a crucial role in various research fields, including entity…

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…

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,…

We created this CORD-NER dataset with comprehensive named entity recognition (NER) on the COVID-19 Open Research Dataset Challenge (CORD-19) corpus (2020-03-13). This CORD-NER dataset covers 75 fine-grained entity types: In addition to the…

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…

The field of clinical natural language processing has been advanced significantly since the introduction of deep learning models. The self-supervised representation learning and the transfer learning paradigm became the methods of choice in…

Open Named Entity Recognition (NER), which involves identifying arbitrary types of entities from arbitrary domains, remains challenging for Large Language Models (LLMs). Recent studies suggest that fine-tuning LLMs on extensive NER data can…

Clinical concept extraction often begins with clinical Named Entity Recognition (NER). Often trained on annotated clinical notes, clinical NER models tend to struggle with tagging clinical entities in user queries because of the structural…

Biomedical Named Entity Recognition (BioNER) is a crucial step for analyzing Biomedical texts, which aims at extracting biomedical named entities from a given text. Different supervised machine learning algorithms have been applied for…

Named entity recognition (NER) identifies typed entity mentions in raw text. While the task is well-established, there is no universally used tagset: often, datasets are annotated for use in downstream applications and accordingly only…

Named Entity Recognition (NER) in historical texts presents unique challenges due to non-standardized language, archaic orthography, and nested or overlapping entities. This study benchmarks a diverse set of NER approaches, ranging from…

For named entity recognition (NER), bidirectional recurrent neural networks became the state-of-the-art technology in recent years. Competing approaches vary with respect to pre-trained word embeddings as well as models for character…

Biomedical named entity recognition (NER) and entity linking (EL) strongly depend on annotated corpora, but the utility of these resources for benchmarking is often assumed rather than characterized. We present a corpus-centric framework…

So far, named entity recognition (NER) has been involved with three major types, including flat, overlapped (aka. nested), and discontinuous NER, which have mostly been studied individually. Recently, a growing interest has been built for…

There is an increasing interest in studying natural language and computer code together, as large corpora of programming texts become readily available on the Internet. For example, StackOverflow currently has over 15 million programming…

Recognition of biomedical entities from literature is a challenging research focus, which is the foundation for extracting a large amount of biomedical knowledge existing in unstructured texts into structured formats. Using the sequence…