MONDO-DOID Entity Alignment 12K: Disease Ontology Mapping Benchmark

MONDO-DOID Entity Alignment 12K is a biomedical entity alignment benchmark for heterogeneous knowledge graphs. It aligns disease entities between the Mondo Disease Ontology (MONDO) and the Human Disease Ontology (DOID) using manually curated exact-match mappings distributed by MONDO in SSSOM format. The dataset was authored by vaibhavalakshmiravideshik and last updated on Hugging Face in May 2026.

Use Cases

• Benchmarking entity alignment algorithms based on manually curated disease mappings.
• Training models for linking heterogeneous biomedical knowledge graphs using the provided gold standard.
• Researching ontology integration and semantic interoperability between MONDO and DOID.

Strengths

• Based on manually curated exact-match mappings from the authoritative MONDO project.
• Designed for realistic entity alignment research rather than simplified dictionary matching.
• Contains 12,000 entity alignments as indicated by the title.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Description metadata is limited; actual data quality requires manual inspection after download.

Provenance

Source

Mappings are distributed by the Mondo Disease Ontology (MONDO) project.

Collection Method

Manually curated exact-match mappings in SSSOM format.

Freshness

Last updated 2026-05-29 01:10:16.