Related papers: Cross-Domain Data Integration for Named Entity Dis…

In the medical domain, identifying and expanding abbreviations in clinical texts is a vital task for both better human and machine understanding. It is a challenging task because many abbreviations are ambiguous especially for intensive…

In this work, we introduce the Multiple Embedding Model for EHR (MEME), an approach that serializes multimodal EHR tabular data into text using pseudo-notes, mimicking clinical text generation. This conversion not only preserves better…

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…

Named entity recognition (NER) is the task to identify mentions of rigid designators from text belonging to predefined semantic types such as person, location, organization etc. NER always serves as the foundation for many natural language…

Due to large number of entities in biomedical knowledge bases, only a small fraction of entities have corresponding labelled training data. This necessitates entity linking models which are able to link mentions of unseen entities using…

Natural language tasks like Named Entity Recognition (NER) in the clinical domain on non-English texts can be very time-consuming and expensive due to the lack of annotated data. Cross-lingual transfer (CLT) is a way to circumvent this…

Much of biomedical and healthcare data is encoded in discrete, symbolic form such as text and medical codes. There is a wealth of expert-curated biomedical domain knowledge stored in knowledge bases and ontologies, but the lack of reliable…

Motivation: Named Entity Recognition (NER) is a key task to support biomedical research. In Biomedical Named Entity Recognition (BioNER), obtaining high-quality expert annotated data is laborious and expensive, leading to the development of…

Deep neural network models have recently achieved state-of-the-art performance gains in a variety of natural language processing (NLP) tasks (Young, Hazarika, Poria, & Cambria, 2017). However, these gains rely on the availability of large…

Biomedical named entity recognition is one of the core tasks in biomedical natural language processing (BioNLP). To tackle this task, numerous supervised/distantly supervised approaches have been proposed. Despite their remarkable success,…

EHR systems lack a unified code system forrepresenting medical concepts, which acts asa barrier for the deployment of deep learningmodels in large scale to multiple clinics and hos-pitals. To overcome this problem, we…

We propose a novel deep learning model for joint document-level entity disambiguation, which leverages learned neural representations. Key components are entity embeddings, a neural attention mechanism over local context windows, and a…

In biomedical natural language processing, named entity recognition (NER) and named entity normalization (NEN) are key tasks that enable the automatic extraction of biomedical entities (e.g. diseases and drugs) from the ever-growing…

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…

Named Entities (NEs) are often written with no orthographic changes across different languages that share a common alphabet. We show that this can be leveraged so as to improve named entity recognition (NER) by using unsupervised word…

State-of-the-art named entity recognition (NER) systems have been improving continuously using neural architectures over the past several years. However, many tasks including NER require large sets of annotated data to achieve such…

We tackle \ac{NED} by comparing entities in short sentences with \wikidata{} graphs. Creating a context vector from graphs through deep learning is a challenging problem that has never been applied to \ac{NED}. Our main contribution is to…

Entities lie in the heart of biomedical natural language understanding, and the biomedical entity linking (EL) task remains challenging due to the fine-grained and diversiform concept names. Generative methods achieve remarkable…

Discriminating the matched named entity pairs or identifying the entities' canonical forms are critical in text mining tasks. More precise named entity normalization in text mining will benefit other subsequent text analytic applications.…

This technical report introduces a Named Clinical Entity Recognition Benchmark for evaluating language models in healthcare, addressing the crucial natural language processing (NLP) task of extracting structured information from clinical…