Related papers: UMLS-KGI-BERT: Data-Centric Knowledge Integration …

The massive scale and growth of textual biomedical data have made its indexing and classification increasingly important. However, existing research on this topic mainly utilized convolutional and recurrent neural networks, which generally…

Language models (LMs) increasingly drive real-world applications that require world knowledge. However, the internal processes through which models turn data into representations of knowledge and beliefs about the world, are poorly…

Specialised pre-trained language models are becoming more frequent in NLP since they can potentially outperform models trained on generic texts. BioBERT and BioClinicalBERT are two examples of such models that have shown promise in medical…

We conduct investigations on clinical text machine translation by examining multilingual neural network models using deep learning such as Transformer based structures. Furthermore, to address the language resource imbalance issue, we also…

Like most of NLP, models for human-centered NLP tasks -- tasks attempting to assess author-level information -- predominantly use representations derived from hidden states of Transformer-based LLMs. However, what component of the LM is…

Recent advancements in Large Language Models (LLMs), particularly those built on Transformer architectures, have significantly broadened the scope of natural language processing (NLP) applications, transcending their initial use in chatbot…

Motivation: State-of-the-art biomedical named entity recognition (BioNER) systems often require handcrafted features specific to each entity type, such as genes, chemicals and diseases. Although recent studies explored using neural network…

While pre-trained language models (LMs) have brought great improvements in many NLP tasks, there is increasing attention to explore capabilities of LMs and interpret their predictions. However, existing works usually focus only on a certain…

Recent advances in natural language processing (NLP) have been driven bypretrained language models like BERT, RoBERTa, T5, and GPT. Thesemodels excel at understanding complex texts, but biomedical literature, withits domain-specific…

Fine-tuning Large Language Models (LLMs) is now a common approach for text classification in a wide range of applications. When labeled documents are scarce, active learning helps save annotation efforts but requires retraining of massive…

Pre-trained language representation models (PLMs) cannot well capture factual knowledge from text. In contrast, knowledge embedding (KE) methods can effectively represent the relational facts in knowledge graphs (KGs) with informative…

Transformer-based language models (LMs) continue to achieve state-of-the-art performance on natural language processing (NLP) benchmarks, including tasks designed to mimic human-inspired "commonsense" competencies. To better understand the…

Predicting molecular properties is a critical component of drug discovery. Recent advances in deep learning, particularly Graph Neural Networks (GNNs), have enabled end-to-end learning from molecular structures, reducing reliance on manual…

In recent years, Large Language Models (LLMs) have emerged as a prominent area of interest across various research domains, including Process Mining (PM). Current applications in PM have predominantly centered on prompt engineering…

Recently, there has been a surge of interest in the NLP community on the use of pretrained Language Models (LMs) as Knowledge Bases (KBs). Researchers have shown that LMs trained on a sufficiently large (web) corpus will encode a…

In medical image analysis, the expertise scarcity and the high cost of data annotation limits the development of large artificial intelligence models. This paper investigates the potential of transfer learning with pre-trained…

Drug repurposing is often framed as a candidate identification task, but existing approaches provide limited guidance for distinguishing biologically plausible candidates from historically well-connected ones. Here we introduce DrugKLM, a…

Natural Language Processing (NLP) is witnessing a remarkable breakthrough driven by the success of Large Language Models (LLMs). LLMs have gained significant attention across academia and industry for their versatile applications in text…

This open access book provides a comprehensive overview of the state of the art in research and applications of Foundation Models and is intended for readers familiar with basic Natural Language Processing (NLP) concepts. Over the recent…

Pre-trained language models (PLMs) like BERT have made significant progress in various downstream NLP tasks. However, by asking models to do cloze-style tests, recent work finds that PLMs are short in acquiring knowledge from unstructured…