Related papers: Deep Contextualized Biomedical Abbreviation Expans…

In comparison to the numerous debiasing methods proposed for the static non-contextualised word embeddings, the discriminative biases in contextualised embeddings have received relatively little attention. We propose a fine-tuning method…

Users often assume that large language models (LLMs) share their cognitive alignment of context and intent, leading them to omit critical information in question-answering (QA) and produce ambiguous queries. Responses based on misaligned…

Automating the recognition of outcomes reported in clinical trials using machine learning has a huge potential of speeding up access to evidence necessary in healthcare decision-making. Prior research has however acknowledged inadequate…

Document-level Event Argument Extraction (DEAE) aims to identify arguments and their specific roles from an unstructured document. The advanced approaches on DEAE utilize prompt-based methods to guide pre-trained language models (PLMs) in…

This work investigates descriptive captions as an additional source of supervision for biological multimodal foundation models. Images and captions can be viewed as complementary samples from the latent morphospace of a species, each…

Emotion-Cause Pair Extraction (ECPE) involves extracting clause pairs representing emotions and their causes in a document. Existing methods tend to overfit spurious correlations, such as positional bias in existing benchmark datasets,…

This paper introduces the Pandemic PACT Advanced Categorisation Engine (PPACE) along with its associated dataset. PPACE is a fine-tuned model developed to automatically classify research abstracts from funded biomedical projects according…

Abbreviations are unavoidable yet critical parts of the medical text. Using abbreviations, especially in clinical patient notes, can save time and space, protect sensitive information, and help avoid repetitions. However, most abbreviations…

Due to the cross-domain distribution shift aroused from diverse medical imaging systems, many deep learning segmentation methods fail to perform well on unseen data, which limits their real-world applicability. Recent works have shown the…

Existing works are dedicated to untangling atomized numerical components (features) from the hidden states of Large Language Models (LLMs). However, they typically rely on autoencoders constrained by some training-time regularization on…

In the context of human-in-the-loop Machine Learning applications, like Decision Support Systems, interpretability approaches should provide actionable insights without making the users wait. In this paper, we propose Accelerated…

Large language models face significant computational bottlenecks during inference due to the expensive output layer computation over large vocabularies. We present CSV-Decode, a novel approach that uses geometric upper bounds to construct…

We propose Denoising Masked Autoencoder (Deno-MAE), a novel multimodal autoencoder framework for denoising modulation signals during pretraining. DenoMAE extends the concept of masked autoencoders by incorporating multiple input modalities,…

Decoding EEG signals for imagined speech is a challenging task due to the high-dimensional nature of the data and low signal-to-noise ratio. In recent years, denoising diffusion probabilistic models (DDPMs) have emerged as promising…

We propose a method for learning disentangled representations of texts that code for distinct and complementary aspects, with the aim of affording efficient model transfer and interpretability. To induce disentangled embeddings, we propose…

This thesis work falls within the framework of question answering (QA) in the biomedical domain where several specific challenges are addressed, such as specialized lexicons and terminologies, the types of treated questions, and the…

Despite tremendous progress in computer vision, there has not been an attempt for machine learning on very large-scale medical image databases. We present an interleaved text/image deep learning system to extract and mine the semantic…

Rb-82 dynamic cardiac PET imaging is widely used for the clinical diagnosis of coronary artery disease (CAD), but its short half-life results in high noise levels that degrade dynamic frame quality and parametric imaging. The lack of paired…

In the domain of question-answering in NLP, the retrieval of Frequently Asked Questions (FAQ) is an important sub-area which is well researched and has been worked upon for many languages. Here, in response to a user query, a retrieval…

Background: Biomedical entity normalization is critical to biomedical research because the richness of free-text clinical data, such as progress notes, can often be fully leveraged only after translating words and phrases into structured…