SegmentNT-3kb-single-task (x14) on SegmentNT human genome annotation protein coding gene auPRC: protein coding gene: per-nucleotide annotation (auPRC)
SegmentNT human genome annotation evaluation of SegmentNT-3kb-single-task (x14) on protein coding gene: per-nucleotide annotation (auPRC), scored with Area under precision-recall curve.
Evaluation results
1 evaluation · 1 metric rows. Different protocols are not a single leaderboard.
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: SegmentNT-3kb-single-task (x14) | Protocol: SegmentNT human genome annotation protein coding gene auPRC: protein coding gene: per-nucleotide annotation (auPRC) Dataset subset: Human genome protein coding gene test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.72 (± 0.001) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.001 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · source checkedMethods, coverage and sourceTest chromosomes 20 and 21; validation chromosome 22; training remaining chromosomes. Test chunks with genes homologous to train/validation genes excluded using Ensembl BioMart accessed 2024-05-08; homologous distal regulatory elements not excluded. Ten test-set samplings with sliding windows beginning at different genomic starting positions. Mean plus reported standard deviation; not ten training seeds. Best validation checkpoint by average MCC across 14 elements. Per-nucleotide predictions pooled across test sequences separately for each genomic element. MCC and auPRC are separate metrics, not cross-element or cross-table pooled comparisons. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene |
Source checking is not independent reproduction. Release 2026-09-23-2b89723c6dd9.
Evaluation procedure
Test chromosomes 20 and 21; validation chromosome 22; training remaining chromosomes. Test chunks with genes homologous to train/validation genes excluded using Ensembl BioMart accessed 2024-05-08; homologous distal regulatory elements not excluded. Ten test-set samplings with sliding windows beginning at different genomic starting positions. Mean plus reported standard deviation; not ten training seeds. Best validation checkpoint by average MCC across 14 elements. Per-nucleotide predictions pooled across test sequences separately for each genomic element. MCC and auPRC are separate metrics, not cross-element or cross-table pooled comparisons.
- Configuration
- SegmentNT-3kb-single-task (x14)
- Protocol
- SegmentNT human genome annotation protein coding gene auPRC: protein coding gene: per-nucleotide annotation (auPRC)
- Dataset subset
- Human genome protein coding gene test chromosomes 20 and 21 (SegmentNT human genome annotation split)
- origin
- Author-reported evaluation
- configuration
- Not reported
- protocol id
- segmentnt-supplement-2025-task-protein-coding-gene-auprc
- metric implementation
- Area under precision-recall curve
Metadata review: source checked. Unreported conditions prevent automatic comparisons.
Reproduction
- Split
- Not reported
- Adaptation
- Not reported
- Scoring implementation
- Area under precision-recall curve
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.
16 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.adaptation Task-specific supervised segmentation training; source-specific backbone and input length retained. Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.metric_implementation Area under precision-recall curve Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.protocol_id segmentnt-supplement-2025-task-protein-coding-gene-auprc Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.evaluation_group_id segmentnt-supplement-2025-method-segmentnt-3kb-single-task-x14-segmentnt-supplement-2025-dataset-human-genome-protein-coding-gene-test-chromosomes-20-and-21-evaluation-setup Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.evidence_overlap Tables 2 and 3 report different metrics over the same paper experiment set. They are not independent reproductions or replications. Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.origin author_reported Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.protocol Test chromosomes 20 and 21; validation chromosome 22; training remaining chromosomes. Test chunks with genes homologous to train/validation genes excluded using Ensembl BioMart accessed 2024-05-08; homologous distal regulatory elements not excluded. Ten test-set samplings with sliding windows beginning at different genomic starting positions. Mean plus reported standard deviation; not ten training seeds. Best validation checkpoint by average MCC across 14 elements. Per-nucleotide predictions pooled across test sequences separately for each genomic element. MCC and auPRC are separate metrics, not cross-element or cross-table pooled comparisons. Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.published_score_reproduction false Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.same_paper_experiment_set segmentnt-2025-human-genome-14-elements Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.source_locator Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
View linked audit checks and correction history
Release 2026-09-23-2b89723c6dd9 · Record review: source checked
1 source records and release history
- SegmentNT supplementary information: complete Tables 2 and 3 · Original source · Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot
Technical metadata and extraction receipts
Stable ID: segmentnt-supplement-2025-evaluation-segmentnt-3kb-single-task-x14-protein-coding-gene-auprc
- areas
- genomics
- tasks
- protein coding gene: per-nucleotide annotation (auPRC)
- origin
- author_reported
- protocol
- Test chromosomes 20 and 21; validation chromosome 22; training remaining chromosomes. Test chunks with genes homologous to train/validation genes excluded using Ensembl BioMart accessed 2024-05-08; homologous distal regulatory elements not excluded. Ten test-set samplings with sliding windows beginning at different genomic starting positions. Mean plus reported standard deviation; not ten training seeds. Best validation checkpoint by average MCC across 14 elements. Per-nucleotide predictions pooled across test sequences separately for each genomic element. MCC and auPRC are separate metrics, not cross-element or cross-table pooled comparisons.
- comparison
- protocol id: segmentnt-supplement-2025-task-protein-coding-gene-auprc; metric implementation: Area under precision-recall curve
- missing metadata
- checkpoint revision: unreported; seeds: unreported; budget: unreported; split manifest: unextracted
- source locator
- Supplementary Table 3; PDF page 5 (printed 4); block 2; data row 14; model SegmentNT-3kb-single-task (x14); column protein coding gene
- same paper experiment set
- segmentnt-2025-human-genome-14-elements
- adaptation
- Task-specific supervised segmentation training; source-specific backbone and input length retained.
- evidence overlap
- Tables 2 and 3 report different metrics over the same paper experiment set. They are not independent reproductions or replications.
- published score reproduction
- false
- suite complete
- false
- evaluation group id
- segmentnt-supplement-2025-method-segmentnt-3kb-single-task-x14-segmentnt-supplement-2025-dataset-human-genome-protein-coding-gene-test-chromosomes-20-and-21-evaluation-setup
Related records
- benchmark: SegmentNT human genome annotation protein coding gene auPRC: protein coding gene: per-nucleotide annotation (auPRC)
- model: SegmentNT-3kb-single-task (x14)
- dataset: Human genome protein coding gene test chromosomes 20 and 21 (SegmentNT human genome annotation split)
- evaluation: SegmentNT-3kb-single-task (x14) · SegmentNT human genome annotation protein coding gene auPRC · Area under precision-recall curve