相关论文: Biomedical Language Models are Robust to Sub-optim…

Pretraining massively multilingual Large Language Models (LLMs) for many languages at once is challenging due to limited model capacity, scarce high-quality data, and compute constraints. Moreover, the lack of language coverage of the…

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…

Language models (LMs) capabilities have grown with a fast pace over the past decade leading researchers in various disciplines, such as biomedical research, to increasingly explore the utility of LMs in their day-to-day applications. Domain…

One of the challenges with finetuning pretrained language models (PLMs) is that their tokenizer is optimized for the language(s) it was pretrained on, but brittle when it comes to previously unseen variations in the data. This can for…

The recent success of Large Language Models (LLMs) has been predominantly driven by curating the training dataset composition, scaling of model architectures and dataset sizes and advancements in pretraining objectives, leaving tokenizer…

This paper investigates the problem of Named Entity Recognition (NER) for extreme low-resource languages with only a few hundred tagged data samples. NER is a fundamental task in Natural Language Processing (NLP). A critical driver…

Motivation: Biomedical named-entity normalization involves connecting biomedical entities with distinct database identifiers in order to facilitate data integration across various fields of biology. Existing systems for biomedical named…

The effectiveness of Neural Machine Translation (NMT) models largely depends on the vocabulary used at training; small vocabularies can lead to out-of-vocabulary problems -- large ones, to memory issues. Subword (SW) tokenization has been…

In recent years, Large Language Models (LLMs) have become widely used in medical applications, such as clinical decision support, medical education, and medical question answering. Yet, these models are often English-centric, limiting their…

This paper aims to benchmark recent progress in language understanding models that output contextualised representations at the character level. Many such modelling architectures and methods to train those architectures have been proposed,…

The goal of personalized medicine is to discover a treatment regimen that optimizes a patient's clinical outcome based on their personal genetic and environmental factors. However, candidate treatments cannot be arbitrarily administered to…

Tokenisation is a core part of language models (LMs). It involves splitting a character sequence into subwords which are assigned arbitrary indices before being served to the LM. While typically lossless, however, this process may lead to…

In recent years, pre-trained language models (PLMs) achieve the best performance on a wide range of natural language processing (NLP) tasks. While the first models were trained on general domain data, specialized ones have emerged to more…

The growth rate in the amount of biomedical documents is staggering. Unlocking information trapped in these documents can enable researchers and practitioners to operate confidently in the information world. Biomedical NER, the task of…

Disease name recognition and normalization, which is generally called biomedical entity linking, is a fundamental process in biomedical text mining. Recently, neural joint learning of both tasks has been proposed to utilize the mutual…

Deep neural-network-based language models (LMs) are increasingly applied to large-scale protein sequence data to predict protein function. However, being largely black-box models and thus challenging to interpret, current protein LM…

The recent development of Large Language Models (LLMs) has been accompanied by an effervescence of novel ideas and methods to better optimize the loss of deep learning models. Claims from those methods are myriad: from faster convergence to…

Recent advances in generative AI have been largely driven by large language models (LLMs), deep neural networks that operate over discrete units called tokens. To represent text, the vast majority of LLMs use words or word fragments as the…

Recent advancements in language models (LMs) have led to the emergence of powerful models such as Small LMs (e.g., T5) and Large LMs (e.g., GPT-4). These models have demonstrated exceptional capabilities across a wide range of tasks, such…

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…