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HunFlair2 in a cross-corpus evaluation of biomedical named entity recognition and normalization tools

arXiv.org Artificial Intelligence

With the exponential growth of the life science literature, biomedical text mining (BTM) has become an essential technology for accelerating the extraction of insights from publications. Identifying named entities (e.g., diseases, drugs, or genes) in texts and their linkage to reference knowledge bases are crucial steps in BTM pipelines to enable information aggregation from different documents. However, tools for these two steps are rarely applied in the same context in which they were developed. Instead, they are applied in the wild, i.e., on application-dependent text collections different from those used for the tools' training, varying, e.g., in focus, genre, style, and text type. This raises the question of whether the reported performance of BTM tools can be trusted for downstream applications. Here, we report on the results of a carefully designed cross-corpus benchmark for named entity extraction, where tools were applied systematically to corpora not used during their training. Based on a survey of 28 published systems, we selected five for an in-depth analysis on three publicly available corpora encompassing four different entity types. Comparison between tools results in a mixed picture and shows that, in a cross-corpus setting, the performance is significantly lower than the one reported in an in-corpus setting. HunFlair2 showed the best performance on average, being closely followed by PubTator. Our results indicate that users of BTM tools should expect diminishing performances when applying them in the wild compared to original publications and show that further research is necessary to make BTM tools more robust.


User Modeling and User Profiling: A Comprehensive Survey

arXiv.org Artificial Intelligence

The integration of artificial intelligence (AI) into daily life, particularly through information retrieval and recommender systems, has necessitated advanced user modeling and profiling techniques to deliver personalized experiences. These techniques aim to construct accurate user representations based on the rich amounts of data generated through interactions with these systems. This paper presents a comprehensive survey of the current state, evolution, and future directions of user modeling and profiling research. We provide a historical overview, tracing the development from early stereotype models to the latest deep learning techniques, and propose a novel taxonomy that encompasses all active topics in this research area, including recent trends. Our survey highlights the paradigm shifts towards more sophisticated user profiling methods, emphasizing implicit data collection, multi-behavior modeling, and the integration of graph data structures. We also address the critical need for privacy-preserving techniques and the push towards explainability and fairness in user modeling approaches. By examining the definitions of core terminology, we aim to clarify ambiguities and foster a clearer understanding of the field by proposing two novel encyclopedic definitions of the main terms. Furthermore, we explore the application of user modeling in various domains, such as fake news detection, cybersecurity, and personalized education. This survey serves as a comprehensive resource for researchers and practitioners, offering insights into the evolution of user modeling and profiling and guiding the development of more personalized, ethical, and effective AI systems.


CST: Calibration Side-Tuning for Parameter and Memory Efficient Transfer Learning

arXiv.org Artificial Intelligence

Achieving a universally high accuracy in object detection is quite challenging, and the mainstream focus in the industry currently lies on detecting specific classes of objects. However, deploying one or multiple object detection networks requires a certain amount of GPU memory for training and storage capacity for inference. This presents challenges in terms of how to effectively coordinate multiple object detection tasks under resource-constrained conditions. This paper introduces a lightweight fine-tuning strategy called Calibration side tuning, which integrates aspects of adapter tuning and side tuning to adapt the successful techniques employed in transformers for use with ResNet. The Calibration side tuning architecture that incorporates maximal transition calibration, utilizing a small number of additional parameters to enhance network performance while maintaining a smooth training process. Furthermore, this paper has conducted an analysis on multiple fine-tuning strategies and have implemented their application within ResNet, thereby expanding the research on fine-tuning strategies for object detection networks. Besides, this paper carried out extensive experiments using five benchmark datasets. The experimental results demonstrated that this method outperforms other compared state-of-the-art techniques, and a better balance between the complexity and performance of the finetune schemes is achieved.


Learning in Mean Field Games: A Survey

arXiv.org Artificial Intelligence

Non-cooperative and cooperative games with a very large number of players have many applications but remain generally intractable when the number of players increases. Introduced by Lasry and Lions, and Huang, Caines and Malham\'e, Mean Field Games (MFGs) rely on a mean-field approximation to allow the number of players to grow to infinity. Traditional methods for solving these games generally rely on solving partial or stochastic differential equations with a full knowledge of the model. Recently, Reinforcement Learning (RL) has appeared promising to solve complex problems at scale. The combination of RL and MFGs is promising to solve games at a very large scale both in terms of population size and environment complexity. In this survey, we review the quickly growing recent literature on RL methods to learn equilibria and social optima in MFGs. We first identify the most common settings (static, stationary, and evolutive) of MFGs. We then present a general framework for classical iterative methods (based on best-response computation or policy evaluation) to solve MFGs in an exact way. Building on these algorithms and the connection with Markov Decision Processes, we explain how RL can be used to learn MFG solutions in a model-free way. Last, we present numerical illustrations on a benchmark problem, and conclude with some perspectives.


Imbalance in Regression Datasets

arXiv.org Artificial Intelligence

For classification, the problem of class imbalance is well known and has been extensively studied. In this paper, we argue that imbalance in regression is an equally important problem which has so far been overlooked: Due to under- and over-representations in a data set's target distribution, regressors are prone to degenerate to naive models, systematically neglecting uncommon training data and over-representing targets seen often during training. We analyse this problem theoretically and use resulting insights to develop a first definition of imbalance in regression, which we show to be a generalisation of the commonly employed imbalance measure in classification. With this, we hope to turn the spotlight on the overlooked problem of imbalance in regression and to provide common ground for future research.


Modified RRT* for Path Planning in Autonomous Driving

arXiv.org Artificial Intelligence

Essential tasks in autonomous driving includes environment perception, detection and tracking, path planning and action control. This paper focus on path planning, which is one of the challenging task as it needs to find optimal path in highly complex and dynamic environments. Usually, a driving scenario has large number of obstacles in their route. In this paper, we propose a two-stage path planning algorithm named Angle-based Directed Rapidly exploring Random Trees (AD-RRT*) to address the problem of optimal path in complex environment. The proposed algorithm uses A* algorithm for global path planning and modifies RRT* to bound the samples using angle. The efficiency of the proposed algorithm is evaluated through experiments in different scenarios based on the location and number of obstacles. The proposed algorithm showed higher rate of convergence with reduced time and less number of nodes than the base RRT* algorithm.


Mixed-Reality-Guided Teleoperation of a Collaborative Robot for Surgical Procedures

arXiv.org Artificial Intelligence

The development of advanced surgical systems embedding the Master-Slave control strategy introduced the possibility of remote interaction between the surgeon and the patient, also known as teleoperation. The present paper aims to integrate innovative technologies into the teleoperation process to enhance workflow during surgeries. The proposed system incorporates a collaborative robot, Kuka IIWA LBR, and Hololens 2 (an augmented reality device), allowing the user to control the robot in an expansive environment that integrates actual (real data) with additional digital information imported via Hololens 2. Experimental data demonstrate the user's ability to control the Kuka IIWA using various gestures to position it with respect to real or digital objects. Thus, this system offers a novel solution to manipulate robots used in surgeries in a more intuitive manner, contributing to the reduction of the learning curve for surgeons. Calibration and testing in multiple scenarios demonstrate the efficiency of the system in providing seamless movements.


Continual Learning on Graphs: Challenges, Solutions, and Opportunities

arXiv.org Artificial Intelligence

Continual learning on graph data has recently attracted paramount attention for its aim to resolve the catastrophic forgetting problem on existing tasks while adapting the sequentially updated model to newly emerged graph tasks. While there have been efforts to summarize progress on continual learning research over Euclidean data, e.g., images and texts, a systematic review of progress in continual learning on graphs, a.k.a, continual graph learning (CGL) or lifelong graph learning, is still demanding. Graph data are far more complex in terms of data structures and application scenarios, making CGL task settings, model designs, and applications extremely challenging. To bridge the gap, we provide a comprehensive review of existing continual graph learning (CGL) algorithms by elucidating the different task settings and categorizing the existing methods based on their characteristics. We compare the CGL methods with traditional continual learning techniques and analyze the applicability of the traditional continual learning techniques to CGL tasks. Additionally, we review the benchmark works that are crucial to CGL research. Finally, we discuss the remaining challenges and propose several future directions. We will maintain an up-to-date GitHub repository featuring a comprehensive list of CGL algorithms, accessible at https://github.com/UConn-DSIS/Survey-of-Continual-Learning-on-Graphs.


MoRAL: MoE Augmented LoRA for LLMs' Lifelong Learning

arXiv.org Artificial Intelligence

Adapting large language models (LLMs) to new domains/tasks and enabling them to be efficient lifelong learners is a pivotal challenge. In this paper, we propose MoRAL, i.e., Mixture-of-Experts augmented Low-Rank Adaptation for Lifelong Learning. MoRAL combines the multi-tasking abilities of MoE with the fine-tuning abilities of LoRA for effective life-long learning of LLMs. In contrast to the conventional approaches that use factual triplets as inputs MoRAL relies on simple question-answer pairs, which is a more practical and effective strategy for robust and efficient learning. Owing to new data settings, we introduce a new evaluation benchmark namely: Life Long Learning of LLM (5L-bench) encompassing a newly curated dataset of question-answer pairs, and a set of evaluation metrics for rigorous evaluation of MoRAL in open-book and closed-book settings. Experimental evaluation shows (i) LLMs learn fast in open-book settings with up to 30.15% improvement in "RA" for Phi-2-2.7B compared to closed-book (for models fine-tuned with MoRAL); (ii) MoRAL shows higher performance improvement for models with a greater number of parameters; (iii) MoRAL is robust to catastrophic forgetting offering better knowledge retention compared to baselines.


A Survey on Extractive Knowledge Graph Summarization: Applications, Approaches, Evaluation, and Future Directions

arXiv.org Artificial Intelligence

With the continuous growth of large Knowledge Graphs (KGs), extractive KG summarization becomes a trending task. Aiming at distilling a compact subgraph with condensed information, it facilitates various downstream KG-based tasks. In this survey paper, we are among the first to provide a systematic overview of its applications and define a taxonomy for existing methods from its interdisciplinary studies. Future directions are also laid out based on our extensive and comparative review.