rewirebio.iobenchmarks
Evaluation

NT-2500M-multi on GUE EPIGENETIC-MARKS-PREDICTION-H3: Epigenetic marks prediction, dataset H3

GUE evaluation of NT-2500M-multi on Epigenetic marks prediction, dataset H3, scored with MCC.

Evaluation results

1 evaluation · 1 result. Different protocols are not a single leaderboard.

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Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: NT-2500M-multiTask: GUE EPIGENETIC-MARKS-PREDICTION-H3: Epigenetic marks prediction, dataset H3
Dataset subset: GUE Epigenetic marks prediction, H3 (GUE split)
78.8 MCC
unitless · higher

Uncertainty: Not yet extracted

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

NT-2500M-multi on GUE EPIGENETIC-MARKS-PREDICTION-H3: Epigenetic marks prediction, dataset H3

Fine-tuned on the GUE training split, scored on its test split. Split sizes are in Table 12.

Aggregation: Not reported

DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes · Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Source checking is not independent reproduction. Release 2026-11-02-a7f03c9e55a5.

Research readiness

0 of 4 readiness checks met. These checks assess whether the evidence supports a reproducible investigation; a source-checked score alone does not meet them.

Readiness checks, gaps and artifacts

Release 2026-11-02-a7f03c9e55a5 · Evidence verified: Not verified

Evidence incomplete

Replay metrics

Exact outcomes, predictions, identifiers and evaluator are connected.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • Metrics are recomputed from the saved predictions: not yet verified

Verified: Not verified

Evidence incomplete

Investigate discrepancies

Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • Metrics are recomputed from the saved predictions: not yet verified
  • Sample annotations are recorded: not yet verified
  • Dependence between samples is assessed: not yet verified

Verified: Not verified

Evidence incomplete

Run locally

A pinned recipe describes the inputs, environment and resource requirements.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • A pinned run recipe exists: not yet verified
  • Compute requirements are estimated: not yet verified

Verified: Not verified

Evidence incomplete

Validate independently

Separate data and exposure records support an independent test.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • Independent validation data exist: not yet verified
  • Overlap with training data is checked: not yet verified

Verified: Not verified

Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.

Artifacts and reproduction

No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.

Evaluation procedure

Fine-tuned on the GUE training split, scored on its test split. Split sizes are in Table 12.

Configuration
NT-2500M-multi
Task
GUE EPIGENETIC-MARKS-PREDICTION-H3: Epigenetic marks prediction, dataset H3
Dataset subset
GUE Epigenetic marks prediction, H3 (GUE split)
origin
Author-reported evaluation
configuration
Not reported
protocol id
gue-task-epigenetic-marks-prediction-h3
metric implementation
MCC

Metadata review: source checked. Unreported conditions prevent automatic comparisons.

Reproduction

Split
Not reported
Adaptation
Not reported
Scoring implementation
MCC

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

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.

10 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
Property and statementOriginal source and locationReview and provenance
Comparison: metric implementation
MCC
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: attributes.comparison.metric_implementation

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Comparison: protocol id
gue-task-epigenetic-marks-prediction-h3
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: attributes.comparison.protocol_id

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Origin
author_reported
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: attributes.origin

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Protocol
Fine-tuned on the GUE training split, scored on its test split. Split sizes are in Table 12.
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: attributes.protocol

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Source location
Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: attributes.source_locator

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Description
GUE evaluation of NT-2500M-multi on Epigenetic marks prediction, dataset H3, scored with MCC.
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: description

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Relationship: assessment
gue-task-epigenetic-marks-prediction-h3
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: links:assessment:gue-task-epigenetic-marks-prediction-h3

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Relationship: data
gue-dataset-gue-epigenetic-marks-prediction-h3
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: links:data:gue-dataset-gue-epigenetic-marks-prediction-h3

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Relationship: system
gue-method-nt-2500m-multi
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: links:system:gue-method-nt-2500m-multi

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Name
NT-2500M-multi on GUE EPIGENETIC-MARKS-PREDICTION-H3: Epigenetic marks prediction, dataset H3
Context-only references
DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

Original source ↗

Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)

Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Retrieved: 2026-09-17T08:06:28.183387+00:00

not individually reviewed

No individual claim review recorded

author reported

Audit details

Field: name

Source artifact SHA-256: 49300acee3e4afd44bebc3de9893c3bc310d331bd4805374e0952fdfbf366f06

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Sources and history

Release 2026-11-02-a7f03c9e55a5 · Record review: source checked

1 source record and release historyDownload this release (gzip)
Technical metadata and extraction receipts

Stable ID: gue-evaluation-nt-2500m-multi-epigenetic-marks-prediction-h3

areas
dna-genomes
tasks
Epigenetic marks prediction, dataset H3
origin
author_reported
protocol
Fine-tuned on the GUE training split, scored on its test split. Split sizes are in Table 12.
comparison
protocol id: gue-task-epigenetic-marks-prediction-h3; metric implementation: MCC
missing metadata
budget: reason: unreported; checkpoint revision: reason: unreported; seeds: reason: unreported; split manifest: reason: unextracted
source locator
Table 6, row(NT-2500M-multi), column(Epigenetic marks prediction H3)
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