Strengths and considerations
No source-reviewed explanatory claims are recorded here yet.
Configuration
Nucleotide Transformers V2
Nucleotide Transformers V2 as evaluated in the cited study. Paper-specific evaluated pipeline; exact checkpoint not inferred from label
Sources
GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies · Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2Overview
Key specifications have not been extracted for this record. See the linked evaluation and sources for the reported setup.
limited source coverage · Automated source review, 2026-09-17. All specifications and missing details
Evaluations and results
1 evaluation · 3 results. Different protocols are not a single leaderboard.
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Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Nucleotide Transformers V2 | Protocol: Natural versus GenomeOcean-generated DNA classification (Natural vs artificial microbial genome sequence) Dataset: GenomeOcean natural/artificial sequence test | 83.1 F1 % · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNucleotide Transformers V2: Natural versus GenomeOcean-generated DNA classification DNABERT 2 and NTv 2 standard fine-tuning; GenomeOcean LoRA. Negatives generated by GenomeOcean itself. CAMI 2 train 18,000/validation 2,000; GTDB test 20,000; balanced natural/artificial 2 kb sequences. Aggregation: Not reported GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies · Table 2:, row Nucleotide Transformers V2, column F1; XML row3 column4 |
| Configuration: Nucleotide Transformers V2 | Protocol: Natural versus GenomeOcean-generated DNA classification (Natural vs artificial microbial genome sequence) Dataset: GenomeOcean natural/artificial sequence test | 83% Recall percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNucleotide Transformers V2: Natural versus GenomeOcean-generated DNA classification DNABERT 2 and NTv 2 standard fine-tuning; GenomeOcean LoRA. Negatives generated by GenomeOcean itself. CAMI 2 train 18,000/validation 2,000; GTDB test 20,000; balanced natural/artificial 2 kb sequences. Aggregation: Not reported GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies · Table 2:, row Nucleotide Transformers V2, column Recall; XML row3 column3 |
| Configuration: Nucleotide Transformers V2 | Protocol: Natural versus GenomeOcean-generated DNA classification (Natural vs artificial microbial genome sequence) Dataset: GenomeOcean natural/artificial sequence test | 83.3% Precision percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNucleotide Transformers V2: Natural versus GenomeOcean-generated DNA classification DNABERT 2 and NTv 2 standard fine-tuning; GenomeOcean LoRA. Negatives generated by GenomeOcean itself. CAMI 2 train 18,000/validation 2,000; GTDB test 20,000; balanced natural/artificial 2 kb sequences. Aggregation: Not reported GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies · Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2 |
Source checking is not independent reproduction. Release 2026-09-29-06401fd5b220.
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How it works, versions and access
Related profile: Nucleotide Transformer. This page retains the exact record and its evaluation context.
How it works
Evaluation in this paper
Paper-specific evaluated pipeline; exact checkpoint not inferred from label
Sources
GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies · Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2Strengths, limitations and unresolved questions
Strengths and limitations
Limitations and conditions
No source-reviewed explanatory claims are recorded here yet.
Profile review details
Primary-source transcription and separate automated review. No human sign-off or experimental reproduction.
Stable record: paper-model-1ed48b3f09b2cf8027Specifications
Inputs, training, access and other details
Explanatory profile: limited source coverage · Automated source review, 2026-09-17. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Model type | Not extracted or verified for this record. |
| Inputs | Not extracted or verified for this record. |
| Outputs | Not extracted or verified for this record. |
| Parameters | Not extracted or verified for this record. |
| Known versions | Not extracted or verified for this record. |
| Training data | Not extracted or verified for this record. |
| Context limits | Not extracted or verified for this record. |
| Access | Not extracted or verified for this record. |
| Code licence | Not extracted or verified for this record. |
| Weights licence | Not extracted or verified for this record. |
Evidence
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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.
4 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Evaluation in this paper Paper-specific evaluated pipeline; exact checkpoint not inferred from label Individual claims | GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2 Version: preprint archived 2025-02-05 | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated review. No human sign-off or experimental reproduction. Field: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Introduction Nucleotide Transformers V2 as evaluated in the cited study. Paper-specific evaluated pipeline; exact checkpoint not inferred from label Individual claims | GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2 Version: preprint archived 2025-02-05 | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated review. No human sign-off or experimental reproduction. Field: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Relationship: family discovery-model-nucleotide-transformer Individual claims | instadeepai/nucleotide-transformer: docs/nucleotide_transformer.md mRNABench Table 2/Appendix model inventory; GenomeOcean Table 2; respective model methods; NABench model inventory; GENEB Table 8; source-labelled configuration Nucleotide Transformers V2 | Existing reviewed locator: Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 2dc37b86e16a6970fbc731751f7719d9f676f7f9 | source checked automated source review · 2026-09-23 Audit detailsSource review establishes this relationship only. Exact evaluated configurations and original numerical review status remain unchanged. Only family identity is shared. Preserve size, v1/v2, corpus and adaptation distinctions; generic NT summary selects a best-overall family variant, without supplying checkpoint identity. Field: Claim: model-evaluation-identity-9bef614903759de558c6 Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Relationship: family discovery-model-nucleotide-transformer Individual claims | GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies mRNABench Table 2/Appendix model inventory; GenomeOcean Table 2; respective model methods; NABench model inventory; GENEB Table 8; source-labelled configuration Nucleotide Transformers V2 | Existing reviewed locator: Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: preprint archived 2025-02-05 | source checked automated source review · 2026-09-23 Audit detailsSource review establishes this relationship only. Exact evaluated configurations and original numerical review status remain unchanged. Only family identity is shared. Preserve size, v1/v2, corpus and adaptation distinctions; generic NT summary selects a best-overall family variant, without supplying checkpoint identity. Field: Claim: model-evaluation-identity-9bef614903759de558c6 Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
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Release 2026-09-29-06401fd5b220 · Record review: needs review
1 source records and release history
- GenomeOcean: An Efficient Genome Foundation Model Trained on Large-Scale Metagenomic Assemblies · Original source · preprint archived 2025-02-05
Technical metadata and extraction receipts
Stable ID: paper-model-1ed48b3f09b2cf8027
- areas
- microbes-communities
- tasks
- Natural vs artificial microbial genome sequence
- entity level
- method
- configuration type
- reported_configuration
- version
- Paper-specific evaluated pipeline; exact checkpoint not inferred from label
- legacy kinds
- model
- entity classification
- review date: 2026-09-17; rationale: This source-scoped entry preserves the method/configuration actually named in an evaluation. It is neither a global family identity nor proof of an immutable checkpoint; the linked evaluation retains adaptation, fitting and scoring details.; source ids: part2-genomeocean-2025; source locator: Table 2:, row Nucleotide Transformers V2, column Precision; XML row3 column2; ambiguities: Configuration means the source-labelled evaluated identity. It does not establish missing checkpoint hashes, default settings or equivalence to same-named records in other papers.