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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…

Clinical Named Entity Recognition (CNER) aims to identify and classify clinical terms such as diseases, symptoms, treatments, exams, and body parts in electronic health records, which is a fundamental and crucial task for clinical and…

Motivation: State-of-the-art biomedical named entity recognition (BioNER) systems often require handcrafted features specific to each entity type, such as genes, chemicals and diseases. Although recent studies explored using neural network…

Named Entity Recognition (NER) or the extraction of concepts from clinical text is the task of identifying entities in text and slotting them into categories such as problems, treatments, tests, clinical departments, occurrences (such as…

The automated and timely conversion of cybersecurity information from unstructured online sources, such as blogs and articles to more formal representations has become a necessity for many applications in the domain nowadays. Named Entity…

We compare the use of LSTM-based and CNN-based character-level word embeddings in BiLSTM-CRF models to approach chemical and disease named entity recognition (NER) tasks. Empirical results over the BioCreative V CDR corpus show that the use…

State-of-the-art named entity recognition systems rely heavily on hand-crafted features and domain-specific knowledge in order to learn effectively from the small, supervised training corpora that are available. In this paper, we introduce…

Named entity recognition (NER) of chemicals and drugs is a critical domain of information extraction in biochemical research. NER provides support for text mining in biochemical reactions, including entity relation extraction, attribute…

For several purposes in Natural Language Processing (NLP), such as Information Extraction, Sentiment Analysis or Chatbot, Named Entity Recognition (NER) holds an important role as it helps to determine and categorize entities in text into…

Biomedical Named Entity Recognition (NER) is a fundamental task of Biomedical Natural Language Processing for extracting relevant information from biomedical texts, such as clinical records, scientific publications, and electronic health…

Biomedical named entity recognition (BNER) serves as the foundation for numerous biomedical text mining tasks. Unlike general NER, BNER require a comprehensive grasp of the domain, and incorporating external knowledge beyond training data…

Clinical named entity recognition (NER) aims to retrieve important entities within clinical narratives. Recent works have demonstrated that large language models (LLMs) can achieve strong performance in this task. While previous works focus…

Recognizing named entities in a document is a key task in many NLP applications. Although current state-of-the-art approaches to this task reach a high performance on clean text (e.g. newswire genres), those algorithms dramatically degrade…

Bidirectional Long Short-Term Memory Recurrent Neural Network (BLSTM-RNN) has been shown to be very effective for modeling and predicting sequential data, e.g. speech utterances or handwritten documents. In this study, we propose to use…

The Bidirectional long short-term memory networks (BiLSTM) have been widely used as an encoder in models solving the named entity recognition (NER) task. Recently, the Transformer is broadly adopted in various Natural Language Processing…

We propose two neural network architectures for nested named entity recognition (NER), a setting in which named entities may overlap and also be labeled with more than one label. We encode the nested labels using a linearized scheme. In our…

The clinical named entity recognition (CNER) task seeks to locate and classify clinical terminologies into predefined categories, such as diagnostic procedure, disease disorder, severity, medication, medication dosage, and sign symptom.…

It has been shown that named entity recognition (NER) could benefit from incorporating the long-distance structured information captured by dependency trees. We believe this is because both types of features - the contextual information…

Named entity recognition (NER) stands as a fundamental and pivotal task within the realm of Natural Language Processing. Particularly within the domain of Biomedical Method NER, this task presents notable challenges, stemming from the…

Background. Previous state-of-the-art systems on Drug Name Recognition (DNR) and Clinical Concept Extraction (CCE) have focused on a combination of text "feature engineering" and conventional machine learning algorithms such as conditional…