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Large Language Models (LLMs) have rapidly become important tools in Biomedical and Health Informatics (BHI), enabling new ways to analyze data, treat patients, and conduct research. This bibliometric review aims to provide a panoramic view of how LLMs have been used in BHI by examining research articles and collaboration networks from 2022 to 2023. It further explores how LLMs can improve Natural Language Processing (NLP) applications in various BHI areas like medical diagnosis, patient engagement, electronic health record management, and personalized medicine. To do this, our bibliometric review identifies key trends, maps out research networks, and highlights major developments in this fast-moving field. Lastly, it discusses the ethical concerns and practical challenges of using LLMs in BHI, such as data privacy and reliable medical recommendations. Looking ahead, we consider how LLMs could further transform biomedical research as well as healthcare delivery and patient outcomes. This comprehensive review serves as a resource for stakeholders in healthcare, including researchers, clinicians, and policymakers, to understand the current state and future potential of LLMs in BHI.

Emerging Large Language Models (LLMs) like GPT-4 have revolutionized Natural Language Processing (NLP), showing potential in traditional tasks such as Named Entity Recognition (NER). Our study explores a three-phase training strategy that harnesses GPT-4's capabilities to enhance the BERT model's performance on NER. Initially, GPT-4 annotates a subset of the CONLL2003 and additional BBC dataset without fine-tuning. We then train BERT using a mix of original and LLM-annotated data, analyzing the efficacy of LLM annotations against traditional methods. The second phase involves comparative experiments with different training regimens, assessing the synergy between distilled and original data. We observe that sequential strategies, particularly a simple mix of training first with distilled data followed by original data, significantly boost performance. In the third phase, we investigate various data blending techniques, including sigmoid and power decay functions, to optimize the training process further. Our results indicate that a strategic mix of distilled and original data markedly elevates the NER capabilities of BERT. Our approach presents a scalable methodology that reduces manual annotation costs and increases efficiency, making it especially pertinent in resource-limited and closed-network environments. The study concludes that while the 'Simple Mix' strategy yields the best results, understanding its underlying mechanisms requires further research. Future work will also focus on refining prompt designs and enhancing annotation selection processes, aiming to extend our methodology to diverse NLP tasks.

Edge AI has been recently proposed to facilitate the training and deployment of Deep Neural Network (DNN) models in proximity to the sources of data. To enable the training of large models on resource-constraint edge devices and protect data privacy, parallel split learning is becoming a practical and popular approach. However, current parallel split learning neglects the resource heterogeneity of edge devices, which may lead to the straggler issue. In this paper, we propose EdgeSplit, a novel parallel split learning framework to better accelerate distributed model training on heterogeneous and resource-constraint edge devices. EdgeSplit enhances the efficiency of model training on less powerful edge devices by adaptively segmenting the model into varying depths. Our approach focuses on reducing total training time by formulating and solving a task scheduling problem, which determines the most efficient model partition points and bandwidth allocation for each device. We employ a straightforward yet effective alternating algorithm for this purpose. Comprehensive tests conducted with a range of DNN models and datasets demonstrate that EdgeSplit not only facilitates the training of large models on resource-restricted edge devices but also surpasses existing baselines in performance.

To visualize the regions of interest that classifiers base their decisions on, different Class Activation Mapping (CAM) methods have been developed. However, all of these techniques target categorical classifiers only, though most real-world tasks are binary classification. In this paper, we extend gradient-based CAM techniques to work with binary classifiers and visualize the active regions for binary facial attribute classifiers. When training an unbalanced binary classifier on an imbalanced dataset, it is well-known that the majority class, i.e. the class with many training samples, is mostly predicted much better than minority class with few training instances. In our experiments on the CelebA dataset, we verify these results, when training an unbalanced classifier to extract 40 facial attributes simultaneously. One would expect that the biased classifier has learned to extract features mainly for the majority classes and that the proportional energy of the activations mainly reside in certain specific regions of the image where the attribute is located. However, we find very little regular activation for samples of majority classes, while the active regions for minority classes seem mostly reasonable and overlap with our expectations. These results suggest that biased classifiers mainly rely on bias activation for majority classes. When training a balanced classifier on the imbalanced data by employing attribute-specific class weights, majority and minority classes are classified similarly well and show expected activations for almost all attributes

Existence constraints were defined in the Relational Data Model, but, unfortunately, are not provided by any Relational Database Management System, except for their NOT NULL particular case. Our (Elementary) Mathematical Data Model extended them to function products and introduced their dual non-existence constraints. MatBase, an intelligent data and knowledge base management system prototype based on both these data models, not only provides existence and non-existence constraints, but also automatically generates code for their enforcement. This paper presents and discusses the algorithms used by MatBase to enforce these types of constraints.

Sentence embeddings produced by Pretrained Language Models (PLMs) have received wide attention from the NLP community due to their superior performance when representing texts in numerous downstream applications. However, the high dimensionality of the sentence embeddings produced by PLMs is problematic when representing large numbers of sentences in memory- or compute-constrained devices. As a solution, we evaluate unsupervised dimensionality reduction methods to reduce the dimensionality of sentence embeddings produced by PLMs. Our experimental results show that simple methods such as Principal Component Analysis (PCA) can reduce the dimensionality of sentence embeddings by almost $50\%$, without incurring a significant loss in performance in multiple downstream tasks. Surprisingly, reducing the dimensionality further improves performance over the original high-dimensional versions for the sentence embeddings produced by some PLMs in some tasks.

Emotion recognition in conversation (ERC) aims to detect the emotion label for each utterance. Motivated by recent studies which have proven that feeding training examples in a meaningful order rather than considering them randomly can boost the performance of models, we propose an ERC-oriented hybrid curriculum learning framework. Our framework consists of two curricula: (1) conversation-level curriculum (CC); and (2) utterance-level curriculum (UC). In CC, we construct a difficulty measurer based on "emotion shift" frequency within a conversation, then the conversations are scheduled in an "easy to hard" schema according to the difficulty score returned by the difficulty measurer. For UC, it is implemented from an emotion-similarity perspective, which progressively strengthens the model's ability in identifying the confusing emotions. With the proposed model-agnostic hybrid curriculum learning strategy, we observe significant performance boosts over a wide range of existing ERC models and we are able to achieve new state-of-the-art results on four public ERC datasets.

Graph Neural Networks (GNNs) have recently become increasingly popular due to their ability to learn complex systems of relations or interactions arising in a broad spectrum of problems ranging from biology and particle physics to social networks and recommendation systems. Despite the plethora of different models for deep learning on graphs, few approaches have been proposed thus far for dealing with graphs that present some sort of dynamic nature (e.g. evolving features or connectivity over time). In this paper, we present Temporal Graph Networks (TGNs), a generic, efficient framework for deep learning on dynamic graphs represented as sequences of timed events. Thanks to a novel combination of memory modules and graph-based operators, TGNs are able to significantly outperform previous approaches being at the same time more computationally efficient. We furthermore show that several previous models for learning on dynamic graphs can be cast as specific instances of our framework. We perform a detailed ablation study of different components of our framework and devise the best configuration that achieves state-of-the-art performance on several transductive and inductive prediction tasks for dynamic graphs.

Automatic KB completion for commonsense knowledge graphs (e.g., ATOMIC and ConceptNet) poses unique challenges compared to the much studied conventional knowledge bases (e.g., Freebase). Commonsense knowledge graphs use free-form text to represent nodes, resulting in orders of magnitude more nodes compared to conventional KBs (18x more nodes in ATOMIC compared to Freebase (FB15K-237)). Importantly, this implies significantly sparser graph structures - a major challenge for existing KB completion methods that assume densely connected graphs over a relatively smaller set of nodes. In this paper, we present novel KB completion models that can address these challenges by exploiting the structural and semantic context of nodes. Specifically, we investigate two key ideas: (1) learning from local graph structure, using graph convolutional networks and automatic graph densification and (2) transfer learning from pre-trained language models to knowledge graphs for enhanced contextual representation of knowledge. We describe our method to incorporate information from both these sources in a joint model and provide the first empirical results for KB completion on ATOMIC and evaluation with ranking metrics on ConceptNet. Our results demonstrate the effectiveness of language model representations in boosting link prediction performance and the advantages of learning from local graph structure (+1.5 points in MRR for ConceptNet) when training on subgraphs for computational efficiency. Further analysis on model predictions shines light on the types of commonsense knowledge that language models capture well.