Framework for Enhanced Ontology Alignment using BERT-Based

This framework combines a few approaches to improve ontology alignment by using the data mining method with BERT. The method utilizes data mining techniques to identify the optimal characteristics for picking the data attributes of instances to match ontologies. Furthermore, this framework was developed to improve current precision and recall measures for ontology matching techniques. Since knowledge integration began, the main requirement for ontology alignment has always been syntactic and structural matching. This article presents a new approach that employs advanced methods like data mining and BERT embeddings to produce more expansive and contextually aware ontology alignment. The proposed system exploits contextual representation of BERT, semantic understanding, feature extraction, and pattern recognition through data mining techniques. The objective is to combine data-driven insights with semantic representation advantages to enhance accuracy and efficiency in the ontology alignment process. The evaluation conducted using annotated datasets as well as traditional approaches demonstrates how effective and adaptable, according to domains, our proposed framework is across several domains

Knowledge Extraction from Textual Resources through Semantic Web Tools and Advanced Machine Learning Algorithms for Applications in Various Domains

Nowadays there is a tremendous amount of unstructured data, often represented by texts, which is created and stored in variety of forms in many domains such as patients' health records, social networks comments, scientific publications, and so on. This volume of data represents an invaluable source of knowledge, but unfortunately it is challenging its mining for machines. At the same time, novel tools as well as advanced methodologies have been introduced in several domains, improving the efficacy and the efficiency of data-based services. Following this trend, this thesis shows how to parse data from text with Semantic Web based tools, feed data into Machine Learning methodologies, and produce services or resources to facilitate the execution of some tasks. More precisely, the use of Semantic Web technologies powered by Machine Learning algorithms has been investigated in the Healthcare and E-Learning domains through not yet experimented methodologies. Furthermore, this thesis investigates the use of some state-of-the-art tools to move data from texts to graphs for representing the knowledge contained in scientific literature. Finally, the use of a Semantic Web ontology and novel heuristics to detect insights from biological data in form of graph are presented. The thesis contributes to the scientific literature in terms of results and resources. Most of the material presented in this thesis derives from research papers published in international journals or conference proceedings

BioLORD-2023: Semantic Textual Representations Fusing LLM and Clinical Knowledge Graph Insights

In this study, we investigate the potential of Large Language Models to complement biomedical knowledge graphs in the training of semantic models for the biomedical and clinical domains. Drawing on the wealth of the UMLS knowledge graph and harnessing cutting-edge Large Language Models, we propose a new state-of-the-art approach for obtaining high-fidelity representations of biomedical concepts and sentences, consisting of three steps: an improved contrastive learning phase, a novel self-distillation phase, and a weight averaging phase. Through rigorous evaluations via the extensive BioLORD testing suite and diverse downstream tasks, we demonstrate consistent and substantial performance improvements over the previous state of the art (e.g. +2pts on MedSTS, +2.5pts on MedNLI-S, +6.1pts on EHR-Rel-B). Besides our new state-of-the-art biomedical model for English, we also distill and release a multilingual model compatible with 50+ languages and finetuned on 7 European languages. Many clinical pipelines can benefit from our latest models. Our new multilingual model enables a range of languages to benefit from our advancements in biomedical semantic representation learning, opening a new avenue for bioinformatics researchers around the world. As a result, we hope to see BioLORD-2023 becoming a precious tool for future biomedical applications.Comment: Preprint of upcoming journal articl

Open-Vocabulary Affordance Detection using Knowledge Distillation and Text-Point Correlation

Affordance detection presents intricate challenges and has a wide range of robotic applications. Previous works have faced limitations such as the complexities of 3D object shapes, the wide range of potential affordances on real-world objects, and the lack of open-vocabulary support for affordance understanding. In this paper, we introduce a new open-vocabulary affordance detection method in 3D point clouds, leveraging knowledge distillation and text-point correlation. Our approach employs pre-trained 3D models through knowledge distillation to enhance feature extraction and semantic understanding in 3D point clouds. We further introduce a new text-point correlation method to learn the semantic links between point cloud features and open-vocabulary labels. The intensive experiments show that our approach outperforms previous works and adapts to new affordance labels and unseen objects. Notably, our method achieves the improvement of 7.96% mIOU score compared to the baselines. Furthermore, it offers real-time inference which is well-suitable for robotic manipulation applications.Comment: 8 page

Knowledge Graphs Meet Multi-Modal Learning: A Comprehensive Survey

Knowledge Graphs (KGs) play a pivotal role in advancing various AI applications, with the semantic web community's exploration into multi-modal dimensions unlocking new avenues for innovation. In this survey, we carefully review over 300 articles, focusing on KG-aware research in two principal aspects: KG-driven Multi-Modal (KG4MM) learning, where KGs support multi-modal tasks, and Multi-Modal Knowledge Graph (MM4KG), which extends KG studies into the MMKG realm. We begin by defining KGs and MMKGs, then explore their construction progress. Our review includes two primary task categories: KG-aware multi-modal learning tasks, such as Image Classification and Visual Question Answering, and intrinsic MMKG tasks like Multi-modal Knowledge Graph Completion and Entity Alignment, highlighting specific research trajectories. For most of these tasks, we provide definitions, evaluation benchmarks, and additionally outline essential insights for conducting relevant research. Finally, we discuss current challenges and identify emerging trends, such as progress in Large Language Modeling and Multi-modal Pre-training strategies. This survey aims to serve as a comprehensive reference for researchers already involved in or considering delving into KG and multi-modal learning research, offering insights into the evolving landscape of MMKG research and supporting future work.Comment: Ongoing work; 41 pages (Main Text), 55 pages (Total), 11 Tables, 13 Figures, 619 citations; Paper list is available at https://github.com/zjukg/KG-MM-Surve

A survey on knowledge-enhanced multimodal learning

Multimodal learning has been a field of increasing interest, aiming to combine various modalities in a single joint representation. Especially in the area of visiolinguistic (VL) learning multiple models and techniques have been developed, targeting a variety of tasks that involve images and text. VL models have reached unprecedented performances by extending the idea of Transformers, so that both modalities can learn from each other. Massive pre-training procedures enable VL models to acquire a certain level of real-world understanding, although many gaps can be identified: the limited comprehension of commonsense, factual, temporal and other everyday knowledge aspects questions the extendability of VL tasks. Knowledge graphs and other knowledge sources can fill those gaps by explicitly providing missing information, unlocking novel capabilities of VL models. In the same time, knowledge graphs enhance explainability, fairness and validity of decision making, issues of outermost importance for such complex implementations. The current survey aims to unify the fields of VL representation learning and knowledge graphs, and provides a taxonomy and analysis of knowledge-enhanced VL models

NLP-Based Techniques for Cyber Threat Intelligence

In the digital era, threat actors employ sophisticated techniques for which, often, digital traces in the form of textual data are available. Cyber Threat Intelligence~(CTI) is related to all the solutions inherent to data collection, processing, and analysis useful to understand a threat actor's targets and attack behavior. Currently, CTI is assuming an always more crucial role in identifying and mitigating threats and enabling proactive defense strategies. In this context, NLP, an artificial intelligence branch, has emerged as a powerful tool for enhancing threat intelligence capabilities. This survey paper provides a comprehensive overview of NLP-based techniques applied in the context of threat intelligence. It begins by describing the foundational definitions and principles of CTI as a major tool for safeguarding digital assets. It then undertakes a thorough examination of NLP-based techniques for CTI data crawling from Web sources, CTI data analysis, Relation Extraction from cybersecurity data, CTI sharing and collaboration, and security threats of CTI. Finally, the challenges and limitations of NLP in threat intelligence are exhaustively examined, including data quality issues and ethical considerations. This survey draws a complete framework and serves as a valuable resource for security professionals and researchers seeking to understand the state-of-the-art NLP-based threat intelligence techniques and their potential impact on cybersecurity

Progress and Opportunities of Foundation Models in Bioinformatics

Bioinformatics has witnessed a paradigm shift with the increasing integration of artificial intelligence (AI), particularly through the adoption of foundation models (FMs). These AI techniques have rapidly advanced, addressing historical challenges in bioinformatics such as the scarcity of annotated data and the presence of data noise. FMs are particularly adept at handling large-scale, unlabeled data, a common scenario in biological contexts due to the time-consuming and costly nature of experimentally determining labeled data. This characteristic has allowed FMs to excel and achieve notable results in various downstream validation tasks, demonstrating their ability to represent diverse biological entities effectively. Undoubtedly, FMs have ushered in a new era in computational biology, especially in the realm of deep learning. The primary goal of this survey is to conduct a systematic investigation and summary of FMs in bioinformatics, tracing their evolution, current research status, and the methodologies employed. Central to our focus is the application of FMs to specific biological problems, aiming to guide the research community in choosing appropriate FMs for their research needs. We delve into the specifics of the problem at hand including sequence analysis, structure prediction, function annotation, and multimodal integration, comparing the structures and advancements against traditional methods. Furthermore, the review analyses challenges and limitations faced by FMs in biology, such as data noise, model explainability, and potential biases. Finally, we outline potential development paths and strategies for FMs in future biological research, setting the stage for continued innovation and application in this rapidly evolving field. This comprehensive review serves not only as an academic resource but also as a roadmap for future explorations and applications of FMs in biology.Comment: 27 pages, 3 figures, 2 table