# GraphRareBench Dataset Card

## Summary

GraphRareBench is a provenance-preserving benchmark for phenotype-driven
rare-disease ranking. The frozen release contains 2,365
ontology-derived cases, 18,093
target-confounder pairs, coarsened HPO queries, fixed candidate pools,
graph-defined hard confounders, and source-linked evidence records.

## Intended Use

Use the release to evaluate closed candidate-set rare-disease ranking methods,
target-over-confounder discrimination, mechanism-specific failures, and
tool-mediated evidence-access behavior.

## Splits

- Train: 1,892 cases
- Dev: 236 cases
- Test: 237 cases

Diseases connected through the same causal-gene component are assigned to the
same partition when gene annotations are available.

## Metrics

The accompanying code computes MRR, Hit@1/5/10, ToC_case, ToC_pair,
AnyConfAbove, mechanism-sliced ToC_pair, case-level bootstrap confidence
intervals, paired bootstrap contrasts, and deterministic tool-trace audit
metrics.