Federated Knowledge Graph Embedding (FKGE) aims to facilitate collaborative learning of entity and relation embeddings from distributed Knowledge Graphs (KGs) across multiple clients, while preserving data privacy. Training FKGE models with higher dimensions is typically favored due to their potential for achieving superior performance. However, high-dimensional embeddings present significant challenges in terms of storage resource and inference speed. Unlike traditional KG embedding methods, FKGE involves multiple client-server communication rounds, where communication efficiency is critical. Existing embedding compression methods for traditional KGs may not be directly applicable to FKGE as they often require multiple model trainings which potentially incur substantial communication costs. In this paper, we propose a light-weight component based on Knowledge Distillation (KD) which is titled FedKD and tailored specifically for FKGE methods. During client-side local training, FedKD facilitates the low-dimensional student model to mimic the score distribution of triples from the high-dimensional teacher model using KL divergence loss. Unlike traditional KD way, FedKD adaptively learns a temperature to scale the score of positive triples and separately adjusts the scores of corresponding negative triples using a predefined temperature, thereby mitigating teacher over-confidence issue. Furthermore, we dynamically adjust the weight of KD loss to optimize the training process. Extensive experiments on three datasets support the effectiveness of FedKD.

Knowledge Graph Completion (KGC) aims to predict the missing information in the (head entity)-[relation]-(tail entity) triplet. Deep Neural Networks have achieved significant progress in the relation prediction task. However, most existing KGC methods focus on single features (e.g., entity IDs) and sub-graph aggregation, which cannot fully explore all the features in the Knowledge Graph (KG), and neglect the external semantic knowledge injection. To address these problems, we propose MUSE, a knowledge-aware reasoning model to learn a tailored embedding space in three dimensions for missing relation prediction through a multi-knowledge representation learning mechanism. Our MUSE consists of three parallel components: 1) Prior Knowledge Learning for enhancing the triplets' semantic representation by fine-tuning BERT; 2) Context Message Passing for enhancing the context messages of KG; 3) Relational Path Aggregation for enhancing the path representation from the head entity to the tail entity. Our experimental results show that MUSE significantly outperforms other baselines on four public datasets, such as over 5.50% improvement in H@1 and 4.20% improvement in MRR on the NELL995 dataset. The code and all datasets will be released via https://github.com/NxxTGT/MUSE.

Knowledge graphs (KGs) play a vital role in enhancing search results and recommendation systems. With the rapid increase in the size of the KGs, they are becoming inaccuracy and incomplete. This problem can be solved by the knowledge graph completion methods, of which graph attention network (GAT)-based methods stand out since their superior performance. However, existing GAT-based knowledge graph completion methods often suffer from overfitting issues when dealing with heterogeneous knowledge graphs, primarily due to the unbalanced number of samples. Additionally, these methods demonstrate poor performance in predicting the tail (head) entity that shares the same relation and head (tail) entity with others. To solve these problems, we propose GATH, a novel GAT-based method designed for Heterogeneous KGs. GATH incorporates two separate attention network modules that work synergistically to predict the missing entities. We also introduce novel encoding and feature transformation approaches, enabling the robust performance of GATH in scenarios with imbalanced samples. Comprehensive experiments are conducted to evaluate the GATH's performance. Compared with the existing SOTA GAT-based model on Hits@10 and MRR metrics, our model improves performance by 5.2% and 5.2% on the FB15K-237 dataset, and by 4.5% and 14.6% on the WN18RR dataset, respectively.

Recent years, multi-hop reasoning has been widely studied for knowledge graph (KG) reasoning due to its efficacy and interpretability. However, previous multi-hop reasoning approaches are subject to two primary shortcomings. First, agents struggle to learn effective and robust policies at the early phase due to sparse rewards. Second, these approaches often falter on specific datasets like sparse knowledge graphs, where agents are required to traverse lengthy reasoning paths. To address these problems, we propose a multi-hop reasoning model with dual agents based on hierarchical reinforcement learning (HRL), which is named FULORA. FULORA tackles the above reasoning challenges by eFficient GUidance-ExpLORAtion between dual agents. The high-level agent walks on the simplified knowledge graph to provide stage-wise hints for the low-level agent walking on the original knowledge graph. In this framework, the low-level agent optimizes a value function that balances two objectives: (1) maximizing return, and (2) integrating efficient guidance from the high-level agent. Experiments conducted on three real-word knowledge graph datasets demonstrate that FULORA outperforms RL-based baselines, especially in the case of long-distance reasoning.

Multi-modal knowledge graphs have emerged as a powerful approach for information representation, combining data from different modalities such as text, images, and videos. While several such graphs have been constructed and have played important roles in applications like visual question answering and recommendation systems, challenges persist in their development. These include the scarcity of high-quality Chinese knowledge graphs and limited domain coverage in existing multi-modal knowledge graphs. This paper introduces MMPKUBase, a robust and extensive Chinese multi-modal knowledge graph that covers diverse domains, including birds, mammals, ferns, and more, comprising over 50,000 entities and over 1 million filtered images. To ensure data quality, we employ Prototypical Contrastive Learning and the Isolation Forest algorithm to refine the image data. Additionally, we have developed a user-friendly platform to facilitate image attribute exploration.

Entity Alignment (EA) aims to match equivalent entities in different Knowledge Graphs (KGs), which is essential for knowledge fusion and integration. Recently, embedding-based EA has attracted significant attention and many approaches have been proposed. Early approaches primarily focus on learning entity embeddings from the structural features of KGs, defined by relation triples. Later methods incorporated entities' names and attributes as auxiliary information to enhance embeddings for EA. However, these approaches often used different techniques to encode structural and attribute information, limiting their interaction and mutual enhancement. In this work, we propose a dense entity retrieval framework for EA, leveraging language models to uniformly encode various features of entities and facilitate nearest entity search across KGs. Alignment candidates are first generated through entity retrieval, which are subsequently reranked to determine the final alignments. We conduct comprehensive experiments on both cross-lingual and monolingual EA datasets, demonstrating that our approach achieves state-of-the-art performance compared to existing EA methods.

Entity alignment (EA) is to identify equivalent entities across different knowledge graphs (KGs), which can help fuse these KGs into a more comprehensive one. Previous EA methods mainly focus on aligning a pair of KGs, and to the best of our knowledge, no existing EA method considers aligning multiple (more than two) KGs. To fill this research gap, in this work, we study a novel problem of aligning multiple KGs and propose an effective framework named MultiEA to solve the problem. First, we embed the entities of all the candidate KGs into a common feature space by a shared KG encoder. Then, we explore three alignment strategies to minimize the distances among pre-aligned entities. In particular, we propose an innovative inference enhancement technique to improve the alignment performance by incorporating high-order similarities. Finally, to verify the effectiveness of MultiEA, we construct two new real-world benchmark datasets and conduct extensive experiments on them. The results show that our MultiEA can effectively and efficiently align multiple KGs in a single pass.

Proteins play a vital role in biological processes and are indispensable for living organisms. Accurate representation of proteins is crucial, especially in drug development. Recently, there has been a notable increase in interest in utilizing machine learning and deep learning techniques for unsupervised learning of protein representations. However, these approaches often focus solely on the amino acid sequence of proteins and lack factual knowledge about proteins and their interactions, thus limiting their performance. In this study, we present GOProteinGNN, a novel architecture that enhances protein language models by integrating protein knowledge graph information during the creation of amino acid level representations. Our approach allows for the integration of information at both the individual amino acid level and the entire protein level, enabling a comprehensive and effective learning process through graph-based learning. By doing so, we can capture complex relationships and dependencies between proteins and their functional annotations, resulting in more robust and contextually enriched protein representations. Unlike previous fusion methods, GOProteinGNN uniquely learns the entire protein knowledge graph during training, which allows it to capture broader relational nuances and dependencies beyond mere triplets as done in previous work. We perform a comprehensive evaluation on several downstream tasks demonstrating that GOProteinGNN consistently outperforms previous methods, showcasing its effectiveness and establishing it as a state-of-the-art solution for protein representation learning.

The integration of knowledge graphs and graph machine learning (GML) in genomic data analysis offers several opportunities for understanding complex genetic relationships, especially at the RNA level. We present a comprehensive approach for leveraging these technologies to analyze genomic variants, specifically in the context of RNA sequencing (RNA-seq) data from COVID-19 patient samples. The proposed method involves extracting variant-level genetic information, annotating the data with additional metadata using SnpEff, and converting the enriched Variant Call Format (VCF) files into Resource Description Framework (RDF) triples. The resulting knowledge graph is further enhanced with patient metadata and stored in a graph database, facilitating efficient querying and indexing. We utilize the Deep Graph Library (DGL) to perform graph machine learning tasks, including node classification with GraphSAGE and Graph Convolutional Networks (GCNs). Our approach demonstrates significant utility using our proposed tool, VariantKG, in three key scenarios: enriching graphs with new VCF data, creating subgraphs based on user-defined features, and conducting graph machine learning for node classification.

This paper investigates the advantages of representing and processing semantic knowledge extracted into graphs within the emerging paradigm of semantic communications. The proposed approach leverages semantic and pragmatic aspects, incorporating recent advances on large language models (LLMs) to achieve compact representations of knowledge to be processed and exchanged between intelligent agents. This is accomplished by using the cascade of LLMs and graph neural networks (GNNs) as semantic encoders, where information to be shared is selected to be meaningful at the receiver. The embedding vectors produced by the proposed semantic encoder represent information in the form of triplets: nodes (semantic concepts entities), edges(relations between concepts), nodes. Thus, semantic information is associated with the representation of relationships among elements in the space of semantic concept abstractions. In this paper, we investigate the potential of achieving high compression rates in communication by incorporating relations that link elements within graph embeddings. We propose sending semantic symbols solely equivalent to node embeddings through the wireless channel and inferring the complete knowledge graph at the receiver. Numerical simulations illustrate the effectiveness of leveraging knowledge graphs to semantically compress and transmit information.