ibm/otter_primekg

The Otter PrimeKG dataset contains 12,757,257 triples covering proteins, drugs, and diseases, and includes protein sequences, SMILES strings, and textual descriptions. Built on PrimeKG—a precision‑medicine knowledge graph integrating 20 biomedical resources—it describes 17,080 diseases and 4 million relations. PrimeKG includes nodes for 29,786 genes/proteins and 7,957 drugs. The multimodal knowledge graph (MKG) derived from PrimeKG comprises 13 modalities and 12,757,300 edges (154,130 data‑property edges and 12,603,170 object‑property edges), featuring 642,150 protein‑protein interaction edges, 25,653 drug‑protein interaction edges, and 2,672,628 drug‑drug interaction edges.

Updated 6/26/2023

hugging_face

Description

Otter PrimeKG Dataset Overview

Dataset Description

Name: Otter PrimeKG
Content: 12,757,257 triples covering proteins, drugs, and diseases. Includes protein sequences, SMILES strings, and textual information.

Dataset Details

PrimeKG: Integrates 20 biomedical resources, describing 17,080 diseases and 4 million relations. Nodes include 29,786 genes/proteins and 7,957 drugs.
Multimodal Knowledge Graph (MKG): Built from PrimeKG, contains 13 modalities, 12,757,300 edges (154,130 data‑property edges and 12,603,170 object‑property edges), among which are 642,150 protein‑protein interaction edges, 25,653 drug‑protein interaction edges, and 2,672,628 drug‑drug interaction edges.

Original Dataset Information

Source: GitHub Repository
Citation: Chandak, P., Huang, K. & Zitnik, M. Building a knowledge graph to enable precision medicine. Sci Data 10, 67 (2023). https://doi.org/10.1038/s41597-023-01960-3

License

Type: MIT

Related Models

Classifier: ibm/otter_primekg_classifier
DistMult: ibm/otter_primekg_distmult
TransE: ibm/otter_primekg_transe

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Topics

Biomedical Knowledge Graph

Precision Medicine

Source

Organization: hugging_face

Created: Unknown

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