Related papers: BioFLAIR: Pretrained Pooled Contextualized Embeddi…

Despite their strong linguistic capabilities, Large Language Models (LLMs) are computationally demanding and require substantial resources for fine-tuning, which is unadapted to privacy and budget constraints of many healthcare settings. To…

Cross-lingual biomedical entity linking (BEL) maps mentions in any language to unique identifiers in a biomedical knowledge base (KB), supporting clinical and biomedical NLP applications. However, expert-annotated training data for BEL are…

Background and Objective: Biomedical Named Entity Recognition (BioNER) is a foundational task in medical informatics, crucial for downstream applications like drug discovery and clinical trial matching. However, adapting general-domain…

Named Entity Recognition (NER) is a critical task that requires substantial annotated data, making it challenging in low-resource scenarios where label acquisition is expensive. While zero-shot and instruction-tuned approaches have made…

Domain adaptation is a widely used method in natural language processing (NLP) to improve the performance of a language model within a specific domain. This method is particularly common in the biomedical domain, which sees regular…

State of the art Named Entity Recognition (NER) models have achieved an impressive ability to extract common phrases from text that belong to labels such as location, organization, time, and person. However, typical NER systems that rely on…

Named Entity Recognition (NER) is a key step in the creation of structured data from digitised historical documents. Traditional NER approaches deal with flat named entities, whereas entities often are nested. For example, a postal address…

Recent work incorporates pre-trained word embeddings such as BERT embeddings into Neural Topic Models (NTMs), generating highly coherent topics. However, with high-quality contextualized document representations, do we really need…

Contextualized embeddings, which capture appropriate word meaning depending on context, have recently been proposed. We evaluate two meth ods for precomputing such embeddings, BERT and Flair, on four Czech text processing tasks:…

Recent work explored the potential of large-scale Transformer-based pre-trained models, especially Pre-trained Language Models (PLMs) in natural language processing. This raises many concerns from various perspectives, e.g., financial costs…

Pretraining deep language models has led to large performance gains in NLP. Despite this success, Schick and Sch\"utze (2020) recently showed that these models struggle to understand rare words. For static word embeddings, this problem has…

Representation learning is a critical ingredient for natural language processing systems. Recent Transformer language models like BERT learn powerful textual representations, but these models are targeted towards token- and sentence-level…

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…

In this work, we represent Lex-BERT, which incorporates the lexicon information into Chinese BERT for named entity recognition (NER) tasks in a natural manner. Instead of using word embeddings and a newly designed transformer layer as in…

Shared embedding spaces are widely used for multimodal search and data curation. In practice, two problems often limit how well this works. First, embeddings can reflect modality more than meaning, so examples cluster by input type even…

Ultra-fine entity typing (UFET) is the task of inferring the semantic types, from a large set of fine-grained candidates, that apply to a given entity mention. This task is especially challenging because we only have a small number of…

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…

In this paper we tackle multilingual named entity recognition task. We use the BERT Language Model as embeddings with bidirectional recurrent network, attention, and NCRF on the top. We apply multilingual BERT only as embedder without any…

Transformer-based pre-trained language models have significantly improved the performance of various natural language processing (NLP) tasks in the recent years. While effective and prevalent, these models are usually prohibitively large…

Foundation vision-language models are currently transforming computer vision, and are on the rise in medical imaging fueled by their very promising generalization capabilities. However, the initial attempts to transfer this new paradigm to…