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README.md
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- ontology
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- knowledge-graphs
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- embeddings
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- ontology
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- knowledge-graphs
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- embeddings
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# Ontology & Embedding Database
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This repository provides the **local ontology database** to be used by StructSense (in general can be used for any other purpose), including both structured ontological data and precomputed vector embeddings for efficient semantic search.
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## Overview
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- **3,925,124 classes**
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- **2,683,756 synonyms**
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- Data storage:
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- **SQLite** → structured ontology data
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- **ChromaDB** → vector embeddings for semantic retrieval
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Vector embeddings (includes label + synonyms + alternative labels + definition) are generated using the `BAAI/bge-large-en-v1.5` model to enable high-quality semantic similarity search.
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## Database Schema (Main Tables)
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If you plan to extend or enrich the database, the primary tables include:
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- `ontologies`
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- `classes`
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- `synonyms`
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- `labels`
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- `parents`
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## 🔎 Search & Query
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You can explore the ontology, perform semantic search, and run database queries via the Hugging Face Space:
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👉 https://huggingface.co/spaces/sensein/demo-ontology-search
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## Data Source
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The original ontology data is sourced from **BioPortal**, which aggregates biomedical ontologies from multiple authoritative providers.
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