Related papers: BioMegatron: Larger Biomedical Domain Language Mod…

Adapting pretrained language models to novel domains, such as clinical applications, traditionally involves retraining their entire set of parameters. Parameter-Efficient Fine-Tuning (PEFT) techniques for fine-tuning language models…

In recent years, major advancements in natural language processing (NLP) have been driven by the emergence of large language models (LLMs), which have significantly revolutionized research and development within the field. Building upon…

This paper empirically investigates the relationship between subword vocabulary size and the performance of large language models (LLMs) to provide insights on how to define the vocabulary size. Experimental results show that larger…

Large Language Models (LLMs) demonstrate remarkable versatility in various NLP tasks but encounter distinct challenges in biomedical due to the complexities of language and data scarcity. This paper investigates LLMs application in the…

The development of open-source, multilingual medical language models can benefit a wide, linguistically diverse audience from different regions. To promote this domain, we present contributions from the following: First, we construct a…

Pretraining DNA language models (DNALMs) on the full human genome is resource-intensive, yet often considered necessary for strong downstream performance. Inspired by recent findings in NLP and long-context modeling, we explore an…

Large language models with a transformer-based encoder/decoder architecture, such as T5, have become standard platforms for supervised tasks. To bring these technologies to the clinical domain, recent work has trained new or adapted…

Multilingual Neural Machine Translation (MNMT) models leverage many language pairs during training to improve translation quality for low-resource languages by transferring knowledge from high-resource languages. We study the quality of a…

Despite being a unique source of information on patients' status and disease progression, clinical notes are characterized by high levels of duplication and information redundancy. In general domain text, it has been shown that…

Many applications today use large language models for code generation; however, production systems have strict latency requirements that can be difficult to meet with large models. Small language models with a few billion parameters are…

Recently, large language models (LLMs) have outperformed human experts in predicting the results of neuroscience experiments (Luo et al., 2024). What is the basis for this performance? One possibility is that statistical patterns in that…

Using deep learning models on small scale datasets would result in overfitting. To overcome this problem, the process of pre-training a model and fine-tuning it to the small scale dataset has been used extensively in domains such as image…

Word embeddings have been widely used in biomedical Natural Language Processing (NLP) applications as they provide vector representations of words capturing the semantic properties of words and the linguistic relationship between words.…

Previous work on document-level NMT usually focuses on limited contexts because of degraded performance on larger contexts. In this paper, we investigate on using large contexts with three main contributions: (1) Different from previous…

Large language models (LLMs) have shown great potential in domain-specific machine translation (MT). However, one major issue is that LLMs pre-trained on general domain corpus might not generalize well to specific domains due to the lack of…

Pre-training large language models has become a standard in the natural language processing community. Such models are pre-trained on generic data (e.g. BookCorpus and English Wikipedia) and often fine-tuned on tasks in the same domain.…

Foundation models, first introduced in 2021, refer to large-scale pretrained models (e.g., large language models (LLMs) and vision-language models (VLMs)) that learn from extensive unlabeled datasets through unsupervised methods, enabling…

The introduction of Large Language Models (LLMs), and the vast volume of publicly available medical data, amplified the application of NLP to the medical domain. However, LLMs are pretrained on data that are not explicitly relevant to the…

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…

Objective: To develop a natural language processing (NLP) system to extract medications and contextual information that help understand drug changes. This project is part of the 2022 n2c2 challenge. Materials and methods: We developed NLP…