Dataset subset reported in SegmentNT supplementary information: complete Tables 2 and 3. Exact split manifest remains unextracted; source-table identity is retained.
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21 evaluations · 42 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: BPNet arch. | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.06 (± 0.002) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.002 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceBPNet arch. on SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 3; PDF page 5 (printed 4); block 1; data row 1; model BPNet arch.; column 3UTR |
| Configuration: BPNet arch. | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.00 (± 0.002) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.002 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceBPNet arch. on SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 2; PDF page 4 (printed 3); block 1; data row 1; model BPNet arch.; column 3UTR |
| Configuration: BPNet arch. large | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.07 (± 0.002) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.002 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 1; data row 2; model BPNet arch. large; column 3UTR |
| Configuration: BPNet arch. large | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.10 (± 0.004) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.004 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 1; data row 2; model BPNet arch. large; column 3UTR |
| Configuration: Random-Init | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.08 (± 0.003) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.003 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceRandom-Init on SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 3; PDF page 5 (printed 4); block 1; data row 10; model Random-Init; column 3UTR |
| Configuration: Random-Init | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.14 (± 0.007) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.007 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceRandom-Init on SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 2; PDF page 4 (printed 3); block 1; data row 10; model Random-Init; column 3UTR |
| Configuration: Random-Init (only head) | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.01 (± 0.000) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 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 3; PDF page 5 (printed 4); block 1; data row 9; model Random-Init (only head); column 3UTR |
| Configuration: Random-Init (only head) | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | -0.0 (± 0.000) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 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 1; data row 9; model Random-Init (only head); column 3UTR |
| Configuration: SegmentBorzoi-30kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.67 (± 0.010) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.010 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 1; data row 20; model SegmentBorzoi-30kb; column 3UTR |
| Configuration: SegmentBorzoi-30kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.68 (± 0.011) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.011 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 1; data row 20; model SegmentBorzoi-30kb; column 3UTR |
| Configuration: SegmentBorzoi-524kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.90 (± 0.103) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.103 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 1; data row 21; model SegmentBorzoi-524kb; column 3UTR |
| Configuration: SegmentBorzoi-524kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.85 (± 0.127) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.127 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 1; data row 21; model SegmentBorzoi-524kb; column 3UTR |
| Configuration: SegmentEnformer-196kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.65 (± 0.051) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.051 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 1; data row 19; model SegmentEnformer-196kb; column 3UTR |
| Configuration: SegmentEnformer-196kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.68 (± 0.039) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.039 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 1; data row 19; model SegmentEnformer-196kb; column 3UTR |
| Configuration: SegmentEnformer-30kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.67 (± 0.011) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.011 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 1; data row 18; model SegmentEnformer-30kb; column 3UTR |
| Configuration: SegmentEnformer-30kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.65 (± 0.008) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.008 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 1; data row 18; model SegmentEnformer-30kb; column 3UTR |
| Configuration: SegmentNT-10kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.64 (± 0.008) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.008 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 1; data row 15; model SegmentNT-10kb; column 3UTR |
| Configuration: SegmentNT-10kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.66 (± 0.007) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.007 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSegmentNT-10kb on SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 2; PDF page 4 (printed 3); block 1; data row 15; model SegmentNT-10kb; column 3UTR |
| Configuration: SegmentNT-20kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.70 (± 0.008) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.008 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 1; data row 16; model SegmentNT-20kb; column 3UTR |
| Configuration: SegmentNT-20kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.69 (± 0.009) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.009 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSegmentNT-20kb on SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 2; PDF page 4 (printed 3); block 1; data row 16; model SegmentNT-20kb; column 3UTR |
| Configuration: SegmentNT-30kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.70 (± 0.006) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.006 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 1; data row 17; model SegmentNT-30kb; column 3UTR |
| Configuration: SegmentNT-30kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.70 (± 0.007) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.007 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSegmentNT-30kb on SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 2; PDF page 4 (printed 3); block 1; data row 17; model SegmentNT-30kb; column 3UTR |
| Configuration: SegmentNT-3kb | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.43 (± 0.010) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.010 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 1; data row 13; model SegmentNT-3kb; column 3UTR |
| Configuration: SegmentNT-3kb | Protocol: SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.51 (± 0.015) mcc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.015 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSegmentNT-3kb on SegmentNT human genome annotation 3UTR MCC: 3UTR: per-nucleotide annotation (MCC) 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. Aggregation: Not reported SegmentNT supplementary information: complete Tables 2 and 3 · Supplementary Table 2; PDF page 4 (printed 3); block 1; data row 13; model SegmentNT-3kb; column 3UTR |
| Configuration: SegmentNT-3kb (NTv1 human; 2.5B) | Protocol: SegmentNT human genome annotation 3UTR auPRC: 3UTR: per-nucleotide annotation (auPRC) Dataset subset: Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) | 0.36 (± 0.014) auprc dimensionless · higher Uncertainty: type: standard_deviation; value: 0.014 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 1; data row 12; model SegmentNT-3kb (NTv1 human; 2.5B); column 3UTR |
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| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| description Dataset subset reported in SegmentNT supplementary information: complete Tables 2 and 3. Exact split manifest remains unextracted; source-table identity is retained. Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 No field-specific location recorded Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| name Human genome 3UTR test chromosomes 20 and 21 (SegmentNT human genome annotation split) Context-only references | SegmentNT supplementary information: complete Tables 2 and 3 No field-specific location recorded Version: Published supplementary information to s41592-025-02881-2; SHA-256 pinned snapshot | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
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Release 2026-09-29-06401fd5b220 · Record review: source checked
Stable ID: segmentnt-supplement-2025-dataset-human-genome-3utr-test-chromosomes-20-and-21