GenBench
Benchmark suite of short- and long-range genomic tasks for fine-tuned genomic foundation models.
Results are recorded on the linked protocols, tasks or configurations listed below. Their settings and evaluations are kept separate.
Overview
An explanatory profile has not yet been reviewed for this record.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Results on linked records
This benchmark has no results of its own in this release. 40 linked records have results. They are not assigned to the underlying benchmark: each record keeps its own settings and evaluations, and its scores are on its own page.
- GenBench Bulk RNA expression Protocol · part of this benchmark · 5 evaluations · 10 results
- GenBench Drosophila enhancer activity (dev) Protocol · part of this benchmark · 6 evaluations · 6 results
- GenBench Drosophila enhancer activity (hk) Protocol · part of this benchmark · 6 evaluations · 6 results
- GenBench Drosophila enhancer activity (Mean) Protocol · part of this benchmark · 6 evaluations · 6 results
- GenBench Genomic structure prediction (H1-ESC) Protocol · part of this benchmark · 6 evaluations · 12 results
- GenBench Genomic structure prediction (HFF) Protocol · part of this benchmark · 6 evaluations · 12 results
- GenBench Long-range Promoters Prediction Protocol · part of this benchmark · 5 evaluations · 5 results
- GenBench Long-range Species Classification Protocol · part of this benchmark · 5 evaluations · 5 results
- GenBench Long-range splice site prediction (Mean) Protocol · part of this benchmark · 6 evaluations · 6 results
- GenBench Long-range splice site prediction (Splice acceptor) Protocol · part of this benchmark · 6 evaluations · 6 results
- GenBench Long-range splice site prediction (Splice donar) Protocol · part of this benchmark · 6 evaluations · 6 results
- GenBench Coding vs Intergenomic Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Core Promoter Detection Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Core Promoter Detection, dataset all Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Core Promoter Detection, dataset notata Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Core Promoter Detection, dataset tata Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Enhancers Cohn Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Enhancers Ensembl Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Ensembl Regulatory Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Nontata Promoters Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human OCR Ensembl Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Promoter Detection Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Promoter Detection, dataset all Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Promoter Detection, dataset notata Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Promoter Detection, dataset tata Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Splice Site Detection Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Transcription Factor Prediction Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Transcription Factor Prediction, dataset 0 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Transcription Factor Prediction, dataset 1 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Transcription Factor Prediction, dataset 2 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Transcription Factor Prediction, dataset 3 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human Transcription Factor Prediction, dataset 4 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Human vs Worm Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Enhancers Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Transcription Factor Prediction Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Transcription Factor Prediction, dataset 0 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Transcription Factor Prediction, dataset 1 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Transcription Factor Prediction, dataset 2 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Transcription Factor Prediction, dataset 3 Protocol · part of this benchmark · 7 evaluations · 7 results
- GenBench Mouse Transcription Factor Prediction, dataset 4 Protocol · part of this benchmark · 7 evaluations · 7 results
12 further linked records are listed under Related records.
Methods and evaluation design
Procedure, tasks and evaluated configurations
Baseline coverage
Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.
0 of 104 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.
Baseline status by linked protocol
- GenBench Bulk RNA expression · 0/2 roles measured
- GenBench Drosophila enhancer activity (dev) · 0/2 roles measured
- GenBench Drosophila enhancer activity (hk) · 0/2 roles measured
- GenBench Drosophila enhancer activity (Mean) · 0/2 roles measured
- GenBench Genomic structure prediction (H1-ESC) · 0/2 roles measured
- GenBench Genomic structure prediction (HFF) · 0/2 roles measured
- GenBench Long-range Promoters Prediction · 0/2 roles measured
- GenBench Long-range Species Classification · 0/2 roles measured
- GenBench Long-range splice site prediction (Mean) · 0/2 roles measured
- GenBench Long-range splice site prediction (Splice acceptor) · 0/2 roles measured
- GenBench Long-range splice site prediction (Splice donar) · 0/2 roles measured
- GenBench Coding vs Intergenomic · 0/2 roles measured
- GenBench Human Core Promoter Detection · 0/2 roles measured
- GenBench Human Core Promoter Detection, dataset all · 0/2 roles measured
- GenBench Human Core Promoter Detection, dataset notata · 0/2 roles measured
- GenBench Human Core Promoter Detection, dataset tata · 0/2 roles measured
- GenBench Human Enhancers Cohn · 0/2 roles measured
- GenBench Human Enhancers Ensembl · 0/2 roles measured
- GenBench Human Ensembl Regulatory · 0/2 roles measured
- GenBench Human Nontata Promoters · 0/2 roles measured
- GenBench Human OCR Ensembl · 0/2 roles measured
- GenBench Human Promoter Detection · 0/2 roles measured
- GenBench Human Promoter Detection, dataset all · 0/2 roles measured
- GenBench Human Promoter Detection, dataset notata · 0/2 roles measured
- GenBench Human Promoter Detection, dataset tata · 0/2 roles measured
- GenBench Human Splice Site Detection · 0/2 roles measured
- GenBench Human Transcription Factor Prediction · 0/2 roles measured
- GenBench Human Transcription Factor Prediction, dataset 0 · 0/2 roles measured
- GenBench Human Transcription Factor Prediction, dataset 1 · 0/2 roles measured
- GenBench Human Transcription Factor Prediction, dataset 2 · 0/2 roles measured
- GenBench Human Transcription Factor Prediction, dataset 3 · 0/2 roles measured
- GenBench Human Transcription Factor Prediction, dataset 4 · 0/2 roles measured
- GenBench Human vs Worm · 0/2 roles measured
- GenBench Mouse Enhancers · 0/2 roles measured
- GenBench Mouse Transcription Factor Prediction · 0/2 roles measured
- GenBench Mouse Transcription Factor Prediction, dataset 0 · 0/2 roles measured
- GenBench Mouse Transcription Factor Prediction, dataset 1 · 0/2 roles measured
- GenBench Mouse Transcription Factor Prediction, dataset 2 · 0/2 roles measured
- GenBench Mouse Transcription Factor Prediction, dataset 3 · 0/2 roles measured
- GenBench Mouse Transcription Factor Prediction, dataset 4 · 0/2 roles measured
- GenBench Virus Covid Variant Classification · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K14ac · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K36me3 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me1 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me2 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me3 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K79me3 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H3K9ac · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H4 · 0/2 roles measured
- GenBench Yeast Epigenetic Marks Prediction, dataset H4ac · 0/2 roles measured
Protocol coverage CSV (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)
Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.
Run instructions
No runnable recipe has been reviewed for this benchmark. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
Strengths, limitations and unresolved questions
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
0 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|
No evidence rows match these filters. Choose another scope or clear the search.
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Original source · arXiv 2406.01627 version 2
Technical metadata and extraction receipts
Stable ID: lit-genomics-20261011-genbench-benchmark-genbench
- areas
- dna-genomes
- contexts
- research
- entity level
- suite
- version
- arXiv v2
- task
- Genomic sequence classification and regression
- scope note
- Tables 3-8 and 10.
- source locator
- Tables 2-10
Related records
- part of: GenBench Bulk RNA expression
- part of: GenBench Drosophila enhancer activity (dev)
- part of: GenBench Drosophila enhancer activity (hk)
- part of: GenBench Drosophila enhancer activity (Mean)
- part of: GenBench Genomic structure prediction (H1-ESC)
- part of: GenBench Genomic structure prediction (HFF)
- part of: GenBench Long-range Promoters Prediction
- part of: GenBench Long-range Species Classification
- part of: GenBench Long-range splice site prediction (Mean)
- part of: GenBench Long-range splice site prediction (Splice acceptor)
- part of: GenBench Long-range splice site prediction (Splice donar)
- part of: GenBench Coding vs Intergenomic
- part of: GenBench Human Core Promoter Detection
- part of: GenBench Human Core Promoter Detection, dataset all
- part of: GenBench Human Core Promoter Detection, dataset notata
- part of: GenBench Human Core Promoter Detection, dataset tata
- part of: GenBench Human Enhancers Cohn
- part of: GenBench Human Enhancers Ensembl
- part of: GenBench Human Ensembl Regulatory
- part of: GenBench Human Nontata Promoters
- part of: GenBench Human OCR Ensembl
- part of: GenBench Human Promoter Detection
- part of: GenBench Human Promoter Detection, dataset all
- part of: GenBench Human Promoter Detection, dataset notata
- part of: GenBench Human Promoter Detection, dataset tata
- part of: GenBench Human Splice Site Detection
- part of: GenBench Human Transcription Factor Prediction
- part of: GenBench Human Transcription Factor Prediction, dataset 0
- part of: GenBench Human Transcription Factor Prediction, dataset 1
- part of: GenBench Human Transcription Factor Prediction, dataset 2
- part of: GenBench Human Transcription Factor Prediction, dataset 3
- part of: GenBench Human Transcription Factor Prediction, dataset 4
- part of: GenBench Human vs Worm
- part of: GenBench Mouse Enhancers
- part of: GenBench Mouse Transcription Factor Prediction
- part of: GenBench Mouse Transcription Factor Prediction, dataset 0
- part of: GenBench Mouse Transcription Factor Prediction, dataset 1
- part of: GenBench Mouse Transcription Factor Prediction, dataset 2
- part of: GenBench Mouse Transcription Factor Prediction, dataset 3
- part of: GenBench Mouse Transcription Factor Prediction, dataset 4
- part of: GenBench Virus Covid Variant Classification
- part of: GenBench Yeast Epigenetic Marks Prediction
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K14ac
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K36me3
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me1
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me2
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me3
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K79me3
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H3K9ac
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H4
- part of: GenBench Yeast Epigenetic Marks Prediction, dataset H4ac