SegmentNT human genome annotation evaluation of Random-Init (only head) on protein coding gene: per-nucleotide annotation (MCC), scored with Matthews correlation coefficient.
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Random-Init (only head) | Protocol: SegmentNT human genome annotation protein coding gene MCC: protein coding gene: per-nucleotide annotation (MCC) Dataset subset: Human genome protein coding gene test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.06 (± 0.000) MCC unitless · higher Uncertainty: SD 0.000 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 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); column protein coding gene |
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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.
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14 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Adaptation Only segmentation head fine-tuned; encoder frozen. Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Comparison: metric implementation Matthews correlation coefficient Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Comparison: protocol id segmentnt-supplement-2025-task-protein-coding-gene-mcc Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Evaluation group id segmentnt-supplement-2025-method-random-init-only-head-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 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| 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 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Origin author_reported Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| 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 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Same paper experiment set segmentnt-2025-human-genome-14-elements Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Source location Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); column protein coding gene Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
| Description SegmentNT human genome annotation evaluation of Random-Init (only head) on protein coding gene: per-nucleotide annotation (MCC), scored with Matthews correlation coefficient. Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 Supplementary Table 2; PDF page 4 (printed 3); block 2; data row 9; model Random-Init (only head); 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 |
Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
Stable ID: segmentnt-supplement-2025-evaluation-random-init-only-head-protein-coding-gene-mcc