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RegD: Hierarchical Embeddings via Dissimilarity between Arbitrary Euclidean Regions

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Hierarchical data is common in many domains like life sciences and e-commerce, and its embeddings often play a critical role. While hyperbolic embeddings offer a theoretically grounded approach to representing hierarchies in low-dimensional spaces, current methods often rely on specific geometric constructs as embedding candidates. This reliance limits their generalizability and makes it difficult to integrate with techniques that model semantic relationships beyond pure hierarchies, such as ontology embeddings. In this paper, we present RegD, a flexible Euclidean framework that supports the use of arbitrary geometric regions -- such as boxes and balls -- as embedding representations. Although RegD operates entirely in Euclidean space, we formally prove that it achieves hyperbolic-like expressiveness by incorporating a depth-based dissimilarity between regions, enabling it to emulate key properties of hyperbolic geometry, including exponential growth. Our empirical evaluation on diverse real-world datasets shows consistent performance gains over state-of-the-art methods and demonstrates RegD's potential for broader applications such as the ontology embedding task that goes beyond hierarchy.

Hui Yang, Jiaoyan Chen• 2025

Related benchmarks

TaskDatasetResultRank
Transitive reasoningMammal
F1 Score71.8
18
Transitive reasoningWordNet Noun
F1 Score59.1
18
Transitive reasoningMCG
F1 Score58.5
18
Transitive reasoningHearst
F1 Score49.6
18
Link PredictionGene Ontology (GO) 10% normalized biomedical ontologies (test)
F1 Score61.4
10
Link PredictionANATOMY Uberon 10% normalized biomedical ontologies (test)
F1 Score45.3
10
Subsumption InferenceGALEN
F1 Score25.8
10
Subsumption InferenceGene Ontology (GO)
F1 Score50.5
10
Subsumption InferenceANATOMY Uberon
F1 Score62.5
10
Link PredictionGALEN 10% normalized biomedical ontologies (test)
F1 Score21
10
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