Related papers: Probing Biomedical Embeddings from Language Models

In this research, we explored the improvement in terms of multi-class disease classification via pre-trained language models over Medical-Abstracts-TC-Corpus that spans five medical conditions. We excluded non-cancer conditions and examined…

We investigate the extent to which verb alternation classes, as described by Levin (1993), are encoded in the embeddings of Large Pre-trained Language Models (PLMs) such as BERT, RoBERTa, ELECTRA, and DeBERTa using selectively constructed…

Enhancing machine capabilities to answer questions has been a topic of considerable focus in recent years of NLP research. Language models like Embeddings from Language Models (ELMo)[1] and Bidirectional Encoder Representations from…

In this paper, we investigate a new approach to Population, Intervention and Outcome (PIO) element detection, a common task in Evidence Based Medicine (EBM). The purpose of this study is two-fold: to build a training dataset for PIO element…

Automatic relationship extraction (RE) from biomedical literature is critical for managing the vast amount of scientific knowledge produced each year. In recent years, utilizing pre-trained language models (PLMs) has become the prevalent…

Pretraining large neural language models, such as BERT, has led to impressive gains on many natural language processing (NLP) tasks. However, most pretraining efforts focus on general domain corpora, such as newswire and Web. A prevailing…

Text embeddings have become an essential part of a variety of language applications. However, methods for interpreting, exploring and reversing embedding spaces are limited, reducing transparency and precluding potentially valuable…

Electronic health records (EHR) contain narrative notes that provide extensive details on the medical condition and management of patients. Natural language processing (NLP) of clinical notes can use observed frequencies of clinical terms…

Language models pre-trained on biomedical corpora, such as BioBERT, have recently shown promising results on downstream biomedical tasks. Many existing pre-trained models, on the other hand, are resource-intensive and computationally heavy…

Contextual word embeddings (e.g. GPT, BERT, ELMo, etc.) have demonstrated state-of-the-art performance on various NLP tasks. Recent work with the multilingual version of BERT has shown that the model performs very well in zero-shot and…

In the era of high performing Large Language Models, researchers have widely acknowledged that contextual word representations are one of the key drivers in achieving top performances in downstream tasks. In this work, we investigate the…

Large Language Models (LLMs), particularly those similar to ChatGPT, have significantly influenced the field of Natural Language Processing (NLP). While these models excel in general language tasks, their performance in domain-specific…

The application of Natural Language Processing (NLP) has achieved a high level of relevance in several areas. In the field of software engineering (SE), NLP applications are based on the classification of similar texts (e.g. software…

Recent results show that deep neural networks using contextual embeddings significantly outperform non-contextual embeddings on a majority of text classification task. We offer precomputed embeddings from popular contextual ELMo model for…

Many recent models in software engineering introduced deep neural models based on the Transformer architecture or use transformer-based Pre-trained Language Models (PLM) trained on code. Although these models achieve the state of the arts…

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…

Recent works show that learning contextualized embeddings for words is beneficial for downstream tasks. BERT is one successful example of this approach. It learns embeddings by solving two tasks, which are masked language model (masked LM)…

In most cases, word embeddings are learned only from raw tokens or in some cases, lemmas. This includes pre-trained language models like BERT. To investigate on the potential of capturing deeper relations between lexical items and…

Pre-trained language models (PLMs) aim to learn universal language representations by conducting self-supervised training tasks on large-scale corpora. Since PLMs capture word semantics in different contexts, the quality of word…

Joint image-text embedding extracted from medical images and associated contextual reports is the bedrock for most biomedical vision-and-language (V+L) tasks, including medical visual question answering, clinical image-text retrieval,…