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Onto2Vec: joint vector-based representation of biological entities and their ontology-based annotations

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arxiv 1802.00864 v1 pith:GJCXWCCB submitted 2018-01-31 q-bio.QM cs.AI

classification q-bio.QMcs.AI
keywords annotationsbiologicalentitiesmethodonto2vecappliedapproachbioinformatics
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We propose the Onto2Vec method, an approach to learn feature vectors for biological entities based on their annotations to biomedical ontologies. Our method can be applied to a wide range of bioinformatics research problems such as similarity-based prediction of interactions between proteins, classification of interaction types using supervised learning, or clustering.

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Cited by 1 Pith paper

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  1. Extending Ontologies: From Dense Embeddings to Hybrid Quantum-Fuzzy Systems

    cs.AI 2026-06 unverdicted novelty 4.0 of 10

    Proposes neuro-quantum-fuzzy systems via quantum-neural networks to enable simultaneous probabilistic and crisp inference in ontology-based knowledge representation.

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