Link Analysis meets Ontologies: Are Embeddings the Answer?
arXiv:2111.11710
Abstract
The increasing amounts of semantic resources offer valuable storage of human knowledge; however, the probability of wrong entries increases with the increased size. The development of approaches that identify potentially spurious parts of a given knowledge base is thus becoming an increasingly important area of interest. In this work, we present a systematic evaluation of whether structure-only link analysis methods can already offer a scalable means to detecting possible anomalies, as well as potentially interesting novel relation candidates. Evaluating thirteen methods on eight different semantic resources, including Gene Ontology, Food Ontology, Marine Ontology and similar, we demonstrated that structure-only link analysis could offer scalable anomaly detection for a subset of the data sets. Further, we demonstrated that by considering symbolic node embedding, explanations of the predictions (links) could be obtained, making this branch of methods potentially more valuable than the black-box only ones. To our knowledge, this is currently one of the most extensive systematic studies of the applicability of different types of link analysis methods across semantic resources from different domains.
arXiv comment17 pages, 8 tables, 7 figures
References in corpus (11)
- Emergence of scaling in random networks
- Efficient Estimation of Word Representations in Vector Space
- Link Prediction in Complex Networks: A Survey
- Fast Graph Representation Learning with PyTorch Geometric
- Variational Graph Auto-Encoders
- Analyzing and Modeling Real-World Phenomena with Complex Networks: A Survey of Applications
- RotatE: Knowledge Graph Embedding by Relational Rotation in Complex Space
- Onto2Vec: joint vector-based representation of biological entities and their ontology-based annotations
- On2Vec: Embedding-based Relation Prediction for Ontology Population
- SNoRe: Scalable Unsupervised Learning of Symbolic Node Representations
- Predicting Gene-Disease Associations with Knowledge Graph Embeddings over Multiple Ontologies