The conventional resource search in cloud infrastructure relies on keyword-based searches or GUIDs, which demand exact matches and significant user effort to locate resources. These conventional search approaches often fail to interpret the intent behind natural language queries, making resource discovery inefficient and inaccessible to users. Though there exists some form of NLP based search engines, they are limited and focused more on analyzing the NLP query itself and extracting identifiers to find the resources. But they fail to search resources based on their behavior or operations or their capabilities or relationships or features or business relevance or the dynamic changing state or the knowledge these resources have. The search criteria has been changing with the inundation of AI based services which involved discovering not just the requested resources and identifiers but seeking insights. The real intent of a search has never been to just to list the resources but with some actual context such as to understand causes of some behavior in the system, compliance checks, capacity estimations, network constraints, or troubleshooting or business insights. This paper proposes an advanced Natural Language Processing (NLP) enhanced by ontology-based semantics to enable intuitive, human-readable queries which allows users to actually discover the intent-of-search itself. By constructing an ontology of cloud resources, their interactions, and behaviors, the proposed framework enables dynamic intent extraction and relevance ranking using Latent Semantic Indexing (LSI) and AI models. It introduces an automated pipeline which integrates ontology extraction by AI powered data crawlers, building a semantic knowledge base for context aware resource discovery.

Existing domain-specific Large Language Models (LLMs) are typically developed by fine-tuning general-purposed LLMs with large-scale domain-specific corpora. However, training on large-scale corpora often fails to effectively organize domain knowledge of LLMs, leading to fragmented understanding. Inspired by how humans connect concepts and organize knowledge through mind maps, we aim to emulate this approach by using ontology with hierarchical conceptual knowledge to reorganize LLM's domain knowledge. From this perspective, we propose an ontology-driven self-training framework called OntoTune, which aims to align LLMs with ontology through in-context learning, enabling the generation of responses guided by the ontology. We leverage in-context learning to identify whether the LLM has acquired the specific concept's ontology knowledge, and select the entries not yet mastered by LLM as the training set to further align the LLM with ontology. Compared to existing domain LLMs based on newly collected large-scale domain-specific corpora, our OntoTune, which relies on the existing, long-term developed ontology and LLM itself, significantly reduces data maintenance costs and offers improved generalization ability. We conduct our study in the medical domain to evaluate the effectiveness of OntoTune, utilizing a standardized medical ontology, SNOMED CT as our ontology source. Experimental results demonstrate that OntoTune achieves state-of-the-art performance in both in-ontology task hypernym discovery and out-of-ontology task medical domain QA. Moreover, compared to the latest direct ontology injection method TaxoLLaMA, our OntoTune better preserves original knowledge of LLM. The code and data are available at https://github.com/zjukg/OntoTune.

The twenty-first century is a data-driven era where human activities and behavior, physical phenomena, scientific discoveries, technology advancements, and almost everything that happens in the world resulting in massive generation, collection, and utilization of data. Connectivity in data is a crucial property. A straightforward example is the World Wide Web, where every webpage is connected to other web pages through hyperlinks, providing a form of directed connectivity. Combinatorial data refers to combinations of data items based on certain connectivity rules. Other forms of combinatorial data include social networks, meshes, community clusters, set systems, and molecules. This Ph.D. dissertation focuses on learning and computing with combinatorial data. We study and examine topological and connectivity features within and across connected data to improve the performance of learning and achieve high algorithmic efficiency.

Applied ethics is ubiquitous in most domains, requiring much deliberation due to its philosophical nature. Varying views often lead to conflicting courses of action where ethical dilemmas become challenging to resolve. Although many factors contribute to such a decision, the major driving forces can be discretized and thus simplified to provide an indicative answer. Knowledge representation and reasoning offer a way to explicitly translate abstract ethical concepts into applicable principles within the context of an event. To achieve this, we propose ApplE, an Applied Ethics ontology that captures philosophical theory and event context to holistically describe the morality of an action. The development process adheres to a modified version of the Simplified Agile Methodology for Ontology Development (SAMOD) and utilizes standard design and publication practices. Using ApplE, we model a use case from the bioethics domain that demonstrates our ontology's social and scientific value. Apart from the ontological reasoning and quality checks, ApplE is also evaluated using the three-fold testing process of SAMOD. ApplE follows FAIR principles and aims to be a viable resource for applied ethicists and ontology engineers.

Most existing Knowledge Graph Question Answering (KGQA) approaches are designed for a specific KG, such as Wikidata, DBpedia or Freebase. Due to the heterogeneity of the underlying graph schema, topology and assertions, most KGQA systems cannot be transferred to unseen Knowledge Graphs (KGs) without resource-intensive training data. We present OntoSCPrompt, a novel Large Language Model (LLM)-based KGQA approach with a two-stage architecture that separates semantic parsing from KG-dependent interactions. OntoSCPrompt first generates a SPARQL query structure (including SPARQL keywords such as SELECT, ASK, WHERE and placeholders for missing tokens) and then fills them with KG-specific information. To enhance the understanding of the underlying KG, we present an ontology-guided, hybrid prompt learning strategy that integrates KG ontology into the learning process of hybrid prompts (e.g., discrete and continuous vectors). We also present several task-specific decoding strategies to ensure the correctness and executability of generated SPARQL queries in both stages. Experimental results demonstrate that OntoSCPrompt performs as well as SOTA approaches without retraining on a number of KGQA datasets such as CWQ, WebQSP and LC-QuAD 1.0 in a resource-efficient manner and can generalize well to unseen domain-specific KGs like DBLP-QuAD and CoyPu KG Code: \href{https://github.com/LongquanJiang/OntoSCPrompt}{https://github.com/LongquanJiang/OntoSCPrompt}

Graphs have emerged as an important foundation for a variety of applications, including capturing and reasoning over factual knowledge, semantic data integration, social networks, and providing factual knowledge for machine learning algorithms. To formalise certain properties of the data and to ensure data quality, there is a need to describe the schema of such graphs. Because of the breadth of applications and availability of different data models, such as RDF and property graphs, both the Semantic Web and the database community have independently developed graph schema languages: SHACL, ShEx, and PG-Schema. Each language has its unique approach to defining constraints and validating graph data, leaving potential users in the dark about their commonalities and differences. In this paper, we provide formal, concise definitions of the core components of each of these schema languages. We employ a uniform framework to facilitate a comprehensive comparison between the languages and identify a common set of functionalities, shedding light on both overlapping and distinctive features of the three languages.

Our aim in this paper is to outline how the design space for the ontologization process is richer than current practice would suggest. We point out that engineering processes as well as products need to be designed - and identify some components of the design. We investigate the possibility of designing a range of radically new practices, providing examples of the new practices from our work over the last three decades with an outlier methodology, bCLEARer. We also suggest that setting an evolutionary context for ontologization helps one to better understand the nature of these new practices and provides the conceptual scaffolding that shapes fertile processes. Where this evolutionary perspective positions digitalization (the evolutionary emergence of computing technologies) as the latest step in a long evolutionary trail of information transitions. This reframes ontologization as a strategic tool for leveraging the emerging opportunities offered by digitalization.

Trustworthiness is essential for the precise and interpretable application of artificial intelligence (AI) in medical imaging. Traditionally, precision and interpretability have been addressed as separate tasks, namely medical image analysis and explainable AI, each developing its own models independently. In this study, for the first time, we investigate the development of a unified medical vision-language pre-training model that can achieve both accurate analysis and interpretable understanding of medical images across various modalities. To build the model, we construct MedConcept-23M, a large-scale dataset comprising 23 million medical image-text pairs extracted from 6.2 million scientific articles, enriched with concepts from the Unified Medical Language System (UMLS). Based on MedConcept-23M, we introduce ConceptCLIP, a medical AI model utilizing concept-enhanced contrastive language-image pre-training. The pre-training of ConceptCLIP involves two primary components: image-text alignment learning (IT-Align) and patch-concept alignment learning (PC-Align). This dual alignment strategy enhances the model's capability to associate specific image regions with relevant concepts, thereby improving both the precision of analysis and the interpretability of the AI system. We conducted extensive experiments on 5 diverse types of medical image analysis tasks, spanning 51 subtasks across 10 image modalities, with the broadest range of downstream tasks. The results demonstrate the effectiveness of the proposed vision-language pre-training model. Further explainability analysis across 6 modalities reveals that ConceptCLIP achieves superior performance, underscoring its robust ability to advance explainable AI in medical imaging. These findings highlight ConceptCLIP's capability in promoting trustworthy AI in the field of medicine.

Information and communications technology and technology-enhanced learning have unquestionably transformed traditional teaching-learning processes and are positioned as key factors to promote quality education, one of the basic sustainable development goals of the 2030 agenda. Document annotation, which was traditionally carried out with pencil and paper and currently benefits from digital document annotation tools, is a representative example of this transformation. Using document annotation tools, students can enrich the documents with annotations that highlight the most relevant aspects of these documents. As the conceptual complexity of the learning domain increases, the annotation of the documents may require comprehensive domain knowledge and an expert analysis capability that students usually lack. Consequently, a proliferation of irrelevant, incorrect, and/or poorly decontextualized annotations may appear, while other relevant aspects are completely ignored by the students. The main hypothesis proposed by this paper is that the use of a guiding annotation ontology in the annotation activities is a keystone aspect to alleviate these shortcomings. Consequently, comprehension is improved, exhaustive content analysis is promoted, and meta-reflective thinking is developed. To test this hypothesis, we describe our own annotation tool, \@note, which fully implements this ontology-enhanced annotation paradigm, and we provide experimental evidence about how \@note can improve academic performance via a pilot study concerning critical literary annotation.

Biomedical knowledge graphs (BKGs) have emerged as powerful tools for organizing and leveraging the vast and complex data found across the biomedical field. Yet, current reviews of BKGs often limit their scope to specific domains or methods, overlooking the broader landscape and the rapid technological progress reshaping it. In this survey, we address this gap by offering a systematic review of BKGs from three core perspectives: domains, tasks, and applications. We begin by examining how BKGs are constructed from diverse data sources, including molecular interactions, pharmacological datasets, and clinical records. Next, we discuss the essential tasks enabled by BKGs, focusing on knowledge management, retrieval, reasoning, and interpretation. Finally, we highlight real-world applications in precision medicine, drug discovery, and scientific research, illustrating the translational impact of BKGs across multiple sectors. By synthesizing these perspectives into a unified framework, this survey not only clarifies the current state of BKG research but also establishes a foundation for future exploration, enabling both innovative methodological advances and practical implementations.