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Graph Neural Networks for Protein-Protein Interactions -- A Short Survey

arXiv.org Artificial Intelligence

Protein-protein interactions (PPIs) play key roles in a broad range of biological processes. Numerous strategies have been proposed for predicting PPIs, and among them, graph-based methods have demonstrated promising outcomes owing to the inherent graph structure of PPI networks. This paper reviews various graph-based methodologies, and discusses their applications in PPI prediction. We classify these approaches into two primary groups based on their model structures. The first category employs Graph Neural Networks (GNN) or Graph Convolutional Networks (GCN), while the second category utilizes Graph Attention Networks (GAT), Graph Auto-Encoders and Graph-BERT. We highlight the distinctive methodologies of each approach in managing the graph-structured data inherent in PPI networks and anticipate future research directions in this domain.


Towards a Research Community in Interpretable Reinforcement Learning: the InterpPol Workshop

arXiv.org Artificial Intelligence

Embracing the pursuit of intrinsically explainable reinforcement learning raises crucial questions: what distinguishes explainability from interpretability? Should explainable and interpretable agents be developed outside of domains where transparency is imperative? What advantages do interpretable policies offer over neural networks? How can we rigorously define and measure interpretability in policies, without user studies? What reinforcement learning paradigms,are the most suited to develop interpretable agents? Can Markov Decision Processes integrate interpretable state representations? In addition to motivate an Interpretable RL community centered around the aforementioned questions, we propose the first venue dedicated to Interpretable RL: the InterpPol Workshop.


Advancing Social Intelligence in AI Agents: Technical Challenges and Open Questions

arXiv.org Artificial Intelligence

Building socially-intelligent AI agents (Social-AI) is a multidisciplinary, multimodal research goal that involves creating agents that can sense, perceive, reason about, learn from, and respond to affect, behavior, and cognition of other agents (human or artificial). Progress towards Social-AI has accelerated in the past decade across several computing communities, including natural language processing, machine learning, robotics, human-machine interaction, computer vision, and speech. Natural language processing, in particular, has been prominent in Social-AI research, as language plays a key role in constructing the social world. In this position paper, we identify a set of underlying technical challenges and open questions for researchers across computing communities to advance Social-AI. We anchor our discussion in the context of social intelligence concepts and prior progress in Social-AI research.


Mixed Prototype Consistency Learning for Semi-supervised Medical Image Segmentation

arXiv.org Artificial Intelligence

Recently, prototype learning has emerged in semi-supervised medical image segmentation and achieved remarkable performance. However, the scarcity of labeled data limits the expressiveness of prototypes in previous methods, potentially hindering the complete representation of prototypes for class embedding. To address this problem, we propose the Mixed Prototype Consistency Learning (MPCL) framework, which includes a Mean Teacher and an auxiliary network. The Mean Teacher generates prototypes for labeled and unlabeled data, while the auxiliary network produces additional prototypes for mixed data processed by CutMix. Through prototype fusion, mixed prototypes provide extra semantic information to both labeled and unlabeled prototypes. High-quality global prototypes for each class are formed by fusing two enhanced prototypes, optimizing the distribution of hidden embeddings used in consistency learning. Extensive experiments on the left atrium and type B aortic dissection datasets demonstrate MPCL's superiority over previous state-of-the-art approaches, confirming the effectiveness of our framework. The code will be released soon.


Second Edition FRCSyn Challenge at CVPR 2024: Face Recognition Challenge in the Era of Synthetic Data

arXiv.org Artificial Intelligence

Synthetic data is gaining increasing relevance for training machine learning models. This is mainly motivated due to several factors such as the lack of real data and intra-class variability, time and errors produced in manual labeling, and in some cases privacy concerns, among others. This paper presents an overview of the 2nd edition of the Face Recognition Challenge in the Era of Synthetic Data (FRCSyn) organized at CVPR 2024. FRCSyn aims to investigate the use of synthetic data in face recognition to address current technological limitations, including data privacy concerns, demographic biases, generalization to novel scenarios, and performance constraints in challenging situations such as aging, pose variations, and occlusions. Unlike the 1st edition, in which synthetic data from DCFace and GANDiffFace methods was only allowed to train face recognition systems, in this 2nd edition we propose new sub-tasks that allow participants to explore novel face generative methods. The outcomes of the 2nd FRCSyn Challenge, along with the proposed experimental protocol and benchmarking contribute significantly to the application of synthetic data to face recognition.


CNN-based explanation ensembling for dataset, representation and explanations evaluation

arXiv.org Artificial Intelligence

Deep learning models, despite their unprecedented success [1, 2], lack full transparency and interpretability in their decision-making processes [3, 4]. This has led to growing concerns about the use of "black box" models and the need for explanations to better understand their inferential process [5]. Using examples of specific cases from a dataset, generated explanations might reveal which elements are most important in a model's prediction [6, 7, 8]. Currently, explanations generated for a trained deep learning models often are presented as individual insights that need to be investigated separately and then compared [9]. Each explanation provides a limited view of the model's decision, as it tends to focuse on specific aspects, making it challenging for a human to obtain a comprehensive understanding. This approach hinders the ability to discern the reasons behind a model's predictions. There has been an emerging trend in explanation ensembling, which is derived from model ensembling, which involves combining multiple predictive models to reduce variation of predictions which often leads to higher overall performance. Examples of such predictive techniques are random forests [10] and gradient boosting [11]. This tendency shows that it is plausible that individual explanations possess unique pieces of information that, when combined, might form a more comprehensive and accurate understanding of a model's inferential process.


Pixel-Wise Symbol Spotting via Progressive Points Location for Parsing CAD Images

arXiv.org Machine Learning

Parsing Computer-Aided Design (CAD) drawings is a fundamental step for CAD revision, semantic-based management, and the generation of 3D prototypes in both the architecture and engineering industries. Labeling symbols from a CAD drawing is a challenging yet notorious task from a practical point of view. In this work, we propose to label and spot symbols from CAD images that are converted from CAD drawings. The advantage of spotting symbols from CAD images lies in the low requirement of labelers and the low-cost annotation. However, pixel-wise spotting symbols from CAD images is challenging work. We propose a pixel-wise point location via Progressive Gaussian Kernels (PGK) to balance between training efficiency and location accuracy. Besides, we introduce a local offset to the heatmap-based point location method. Based on the keypoints detection, we propose a symbol grouping method to redraw the rectangle symbols in CAD images. We have released a dataset containing CAD images of equipment rooms from telecommunication industrial CAD drawings. Extensive experiments on this real-world dataset show that the proposed method has good generalization ability.


RLHF Deciphered: A Critical Analysis of Reinforcement Learning from Human Feedback for LLMs

arXiv.org Artificial Intelligence

State-of-the-art large language models (LLMs) have become indispensable tools for various tasks. However, training LLMs to serve as effective assistants for humans requires careful consideration. A promising approach is reinforcement learning from human feedback (RLHF), which leverages human feedback to update the model in accordance with human preferences and mitigate issues like toxicity and hallucinations. Yet, an understanding of RLHF for LLMs is largely entangled with initial design choices that popularized the method and current research focuses on augmenting those choices rather than fundamentally improving the framework. In this paper, we analyze RLHF through the lens of reinforcement learning principles to develop an understanding of its fundamentals, dedicating substantial focus to the core component of RLHF -- the reward model. Our study investigates modeling choices, caveats of function approximation, and their implications on RLHF training algorithms, highlighting the underlying assumptions made about the expressivity of reward. Our analysis improves the understanding of the role of reward models and methods for their training, concurrently revealing limitations of the current methodology. We characterize these limitations, including incorrect generalization, model misspecification, and the sparsity of feedback, along with their impact on the performance of a language model. The discussion and analysis are substantiated by a categorical review of current literature, serving as a reference for researchers and practitioners to understand the challenges of RLHF and build upon existing efforts.


PerkwE_COQA: Enhanced Persian Conversational Question Answering by combining contextual keyword extraction with Large Language Models

arXiv.org Artificial Intelligence

Smart cities need the involvement of their residents to enhance quality of life. Conversational query-answering is an emerging approach for user engagement. There is an increasing demand of an advanced conversational question-answering that goes beyond classic systems. Existing approaches have shown that LLMs offer promising capabilities for CQA, but may struggle to capture the nuances of conversational contexts. The new approach involves understanding the content and engaging in a multi-step conversation with the user to fulfill their needs. This paper presents a novel method to elevate the performance of Persian Conversational question-answering (CQA) systems. It combines the strengths of Large Language Models (LLMs) with contextual keyword extraction. Our method extracts keywords specific to the conversational flow, providing the LLM with additional context to understand the user's intent and generate more relevant and coherent responses. We evaluated the effectiveness of this combined approach through various metrics, demonstrating significant improvements in CQA performance compared to an LLM-only baseline. The proposed method effectively handles implicit questions, delivers contextually relevant answers, and tackles complex questions that rely heavily on conversational context. The findings indicate that our method outperformed the evaluation benchmarks up to 8% higher than existing methods and the LLM-only baseline.


Unsupervised Federated Optimization at the Edge: D2D-Enabled Learning without Labels

arXiv.org Artificial Intelligence

Federated learning (FL) is a popular solution for distributed machine learning (ML). While FL has traditionally been studied for supervised ML tasks, in many applications, it is impractical to assume availability of labeled data across devices. To this end, we develop Cooperative Federated unsupervised Contrastive Learning ({\tt CF-CL)} to facilitate FL across edge devices with unlabeled datasets. {\tt CF-CL} employs local device cooperation where either explicit (i.e., raw data) or implicit (i.e., embeddings) information is exchanged through device-to-device (D2D) communications to improve local diversity. Specifically, we introduce a \textit{smart information push-pull} methodology for data/embedding exchange tailored to FL settings with either soft or strict data privacy restrictions. Information sharing is conducted through a probabilistic importance sampling technique at receivers leveraging a carefully crafted reserve dataset provided by transmitters. In the implicit case, embedding exchange is further integrated into the local ML training at the devices via a regularization term incorporated into the contrastive loss, augmented with a dynamic contrastive margin to adjust the volume of latent space explored. Numerical evaluations demonstrate that {\tt CF-CL} leads to alignment of latent spaces learned across devices, results in faster and more efficient global model training, and is effective in extreme non-i.i.d. data distribution settings across devices.