Tier C · benchmark_suite

Numeric results available

Benchmarking DNA foundation models for genomic and genetic tasks

One-time benchmark study rather than a maintained benchmark suite.

Result coverage

8 result rows across 6 protocols

Primary sources: primary_sources_screened
Related works: index_screen_complete
Authority readiness: discovery_only
Literature cutoff: 2026-08-06

Track	Numeric coverage	Evidence closure	Blocker
`B08-TR01` Benchmarking DNA foundation models for genomic and genetic tasks — Genomic element classification	numeric_results_available 0 results	closed_no_eligible_public_numeric_result	no_eligible_public_numeric_result
`B08-TR02` Benchmarking DNA foundation models for genomic and genetic tasks — Promoter recognition	numeric_results_available 0 results	closed_no_eligible_public_numeric_result	no_eligible_public_numeric_result
`B08-TR03` Benchmarking DNA foundation models for genomic and genetic tasks — TF binding-site prediction	numeric_results_available 0 results	closed_no_eligible_public_numeric_result	no_eligible_public_numeric_result
`B08-TR04` Benchmarking DNA foundation models for genomic and genetic tasks — Splice-site prediction	numeric_results_available 2 results	closed_with_numeric_evidence	NR
`B08-TR05` Benchmarking DNA foundation models for genomic and genetic tasks — Regulatory variant-effect prediction	numeric_results_available 4 results	closed_with_numeric_evidence	NR
`B08-TR06` Benchmarking DNA foundation models for genomic and genetic tasks — Molecular functional or pathogenic variant interpretation	numeric_results_available 2 results	closed_with_numeric_evidence	NR

Protocol-level results

Choose the evaluation unit before comparing scores.

Each card keeps the four claim types inside one protocol + metric fingerprint.

Splice-site prediction · B08-TR04 · same_source_table

Benchmarking DNA foundation models for genomic and genetic tasks — Splice-site prediction

Full results →

splice donor identification · paper-defined held-out test split · paper-defined held-out evaluation

AUROCclassification · 1 results

Official baseline

No eligible claimNo qualifying result exists in this snapshot.

Original-table best

No eligible claimNo qualifying result exists in this snapshot.

Official board / challenge leader

No eligible claimNo qualifying result exists in this snapshot.

Strict cross-work SOTA

No eligible claimAn original-table best is never substituted for cross-work SOTA.

Fingerprint: PMF-v1-683B5992FB2043C2179E8E05

Splice-site prediction · B08-TR04 · same_source_table

Benchmarking DNA foundation models for genomic and genetic tasks — Splice-site prediction

Full results →

splice acceptor identification · paper-defined held-out test split · paper-defined held-out evaluation

AUROCclassification · 1 results

Official baseline

No eligible claimNo qualifying result exists in this snapshot.

Original-table best

No eligible claimNo qualifying result exists in this snapshot.

Official board / challenge leader

No eligible claimNo qualifying result exists in this snapshot.

Strict cross-work SOTA

No eligible claimAn original-table best is never substituted for cross-work SOTA.

Fingerprint: PMF-v1-26C8D1580FB51539367BC138

Molecular functional or pathogenic variant interpretation · B08-TR06 · same_source_table

Benchmarking DNA foundation models for genomic and genetic tasks — Molecular functional or pathogenic variant interpretation

Full results →

pathogenic versus common SNP · nested chromosome-based held-out test groups · paper-defined held-out evaluation

AUROCclassification · 2 results

Official baseline

No eligible claimNo qualifying result exists in this snapshot.

Original-table best

Nucleotide Transformer v20.73AUROC · fractionEvidence ↗

Official board / challenge leader

No eligible claimNo qualifying result exists in this snapshot.

Strict cross-work SOTA

No eligible claimAn original-table best is never substituted for cross-work SOTA.

Fingerprint: PMF-v1-7AA4F4DD18F6A98FD71357EB

Regulatory variant-effect prediction · B08-TR05 · same_source_table

Benchmarking DNA foundation models for genomic and genetic tasks — Regulatory variant-effect prediction

Full results →

putative causal sQTL · nested chromosome-based held-out test groups · paper-defined held-out evaluation

AUROCclassification · 1 results

Official baseline

No eligible claimNo qualifying result exists in this snapshot.

Original-table best

No eligible claimNo qualifying result exists in this snapshot.

Official board / challenge leader

No eligible claimNo qualifying result exists in this snapshot.

Strict cross-work SOTA

No eligible claimAn original-table best is never substituted for cross-work SOTA.

Fingerprint: PMF-v1-C66A17D570014B8F17BC4007

Regulatory variant-effect prediction · B08-TR05 · same_source_table

Benchmarking DNA foundation models for genomic and genetic tasks — Regulatory variant-effect prediction

Full results →

putative causal ipaQTL · nested chromosome-based held-out test groups · paper-defined held-out evaluation

AUROCclassification · 1 results

Official baseline

No eligible claimNo qualifying result exists in this snapshot.

Original-table best

No eligible claimNo qualifying result exists in this snapshot.

Official board / challenge leader

No eligible claimNo qualifying result exists in this snapshot.

Strict cross-work SOTA

No eligible claimAn original-table best is never substituted for cross-work SOTA.

Fingerprint: PMF-v1-501F080104806EB4073AEC3E

Regulatory variant-effect prediction · B08-TR05 · same_source_table

Benchmarking DNA foundation models for genomic and genetic tasks — Regulatory variant-effect prediction

Full results →

putative causal eQTL · nested chromosome-based held-out test groups · paper-defined held-out evaluation

AUROCclassification · 2 results

Official baseline

No eligible claimNo qualifying result exists in this snapshot.

Original-table best

Enformer0.77AUROC · fractionEvidence ↗

Official board / challenge leader

No eligible claimNo qualifying result exists in this snapshot.

Strict cross-work SOTA

No eligible claimAn original-table best is never substituted for cross-work SOTA.

Fingerprint: PMF-v1-9B3D9A02DE958A097E88E22C

Tasks & tracks

B08-TR01
Benchmarking DNA foundation models for genomic and genetic tasks — Genomic element classification
B08-TR02
Benchmarking DNA foundation models for genomic and genetic tasks — Promoter recognition
B08-TR03
Benchmarking DNA foundation models for genomic and genetic tasks — TF binding-site prediction
B08-TR04
Benchmarking DNA foundation models for genomic and genetic tasks — Splice-site prediction
B08-TR05
Benchmarking DNA foundation models for genomic and genetic tasks — Regulatory variant-effect prediction
B08-TR06
Benchmarking DNA foundation models for genomic and genetic tasks — Molecular functional or pathogenic variant interpretation

Official links

Paper ↗

License: article/supplement-specific
Access: mixed

Atlas crosswalk

NR
unmapped