Related papers: BIBERT-Pipe on Biomedical Nested Named Entity Link…

Entity and relation extraction is a key task in information extraction, where the output can be used for downstream NLP tasks. Existing approaches for entity and relation extraction tasks mainly focus on the English corpora and ignore other…

Named Entity Recognition(NER) is a task of recognizing entities at a token level in a sentence. This paper focuses on solving NER tasks in a multilingual setting for complex named entities. Our team, LLM-RM participated in the recently…

While Named Entity Recognition (NER) is a widely studied task, making inferences of entities with only a few labeled data has been challenging, especially for entities with nested structures. Unlike flat entities, entities and their nested…

Multiple neural language models have been developed recently, e.g., BERT and XLNet, and achieved impressive results in various NLP tasks including sentence classification, question answering and document ranking. In this paper, we explore…

Motivation: A perennial challenge for biomedical researchers and clinical practitioners is to stay abreast with the rapid growth of publications and medical notes. Natural language processing (NLP) has emerged as a promising direction for…

Nowadays, many Natural Language Processing (NLP) tasks see the demand for incorporating knowledge external to the local information to further improve the performance. However, there is little related work on Named Entity Recognition (NER),…

This paper presents several BERT-based models for Russian language biomedical text mining (RuBioBERT, RuBioRoBERTa). The models are pre-trained on a corpus of freely available texts in the Russian biomedical domain. With this pre-training,…

Entity linking faces significant challenges such as prolific variations and prevalent ambiguities, especially in high-value domains with myriad entities. Standard classification approaches suffer from the annotation bottleneck and cannot…

The success of pre-trained word embeddings has motivated its use in tasks in the biomedical domain. The BERT language model has shown remarkable results on standard performance metrics in tasks such as Named Entity Recognition (NER) and…

An important task in NLP applications such as sentence simplification is the ability to take a long, complex sentence and split it into shorter sentences, rephrasing as necessary. We introduce a novel dataset and a new model for this `split…

Entity Linking (EL) seeks to align entity mentions in text to entries in a knowledge-base and is usually comprised of two phases: candidate generation and candidate ranking. While most methods focus on the latter, it is the candidate…

Nested named entity recognition (nested NER) is a fundamental task in natural language processing. Various span-based methods have been proposed to detect nested entities with span representations. However, span-based methods do not…

A major challenge in Entity Linking (EL) is making effective use of contextual information to disambiguate mentions to Wikipedia that might refer to different entities in different contexts. The problem exacerbates with cross-lingual EL…

Recent progress in large language models (LLMs) has leveraged their in-context learning (ICL) abilities to enable quick adaptation to unseen biomedical NLP tasks. By incorporating only a few input-output examples into prompts, LLMs can…

Ever-expanding volumes of biomedical text require automated semantic annotation techniques to curate and put to best use. An established field of research seeks to link mentions in text to knowledge bases such as those included in the UMLS…

Biomedical Named Entity Recognition (BioNER) is the fundamental task of identifying named entities from biomedical text. However, BioNER suffers from severe data scarcity and lacks high-quality labeled data due to the highly specialized and…

Identifying named entities is, in general, a practical and challenging task in the field of Natural Language Processing. Named Entity Recognition on the code-mixed text is further challenging due to the linguistic complexity resulting from…

We present a refined approach to biomedical question-answering (QA) services by integrating large language models (LLMs) with Multi-BERT configurations. By enhancing the ability to process and prioritize vast amounts of complex biomedical…

Malaysian English is a low resource creole language, where it carries the elements of Malay, Chinese, and Tamil languages, in addition to Standard English. Named Entity Recognition (NER) models underperform when capturing entities from…

Recognizing spans of biomedical concepts and their types (e.g., drug or gene) in free text, often called biomedical named entity recognition (NER), is a basic component of information extraction (IE) pipelines. Without a strong NER…