lentiMPRA of human-derived variants (Dataset 6)
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Release 2026-10-10-7fcc3e48a123 · Evidence verified: Not verified
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24 evaluations · 24 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Borzoi (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.023 pearson-correlation unitless · higher Uncertainty: SE 0.004. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBorzoi on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Borzoi', column 'NPC (14,042 SNPs)' |
| Configuration: Caduceus (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.023 pearson-correlation unitless · higher Uncertainty: SE 0.004. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Caduceus', column 'NPC (14,042 SNPs)' |
| Configuration: ChromBPNet (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.08 pearson-correlation unitless · higher Uncertainty: SE 0.001. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceChromBPNet on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'ChromBPNet', column 'NPC (14,042 SNPs)' |
| Configuration: DNABERT-2 (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | −0.004 pearson-correlation unitless · higher Uncertainty: SE 0.007. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2 on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'DNABERT-2', column 'NPC (14,042 SNPs)' |
| Configuration: Enformer (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.008 pearson-correlation unitless · higher Uncertainty: SE 0.080. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceEnformer on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Enformer', column 'NPC (14,042 SNPs)' |
| Configuration: Gena LM b-multi (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.01 pearson-correlation unitless · higher Uncertainty: SE 0.001. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGena LM b-multi on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Gena LM b-multi', column 'NPC (14,042 SNPs)' |
| Configuration: Gena LM-base (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.024 pearson-correlation unitless · higher Uncertainty: SE 0.002. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGena LM-base on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Gena LM-base', column 'NPC (14,042 SNPs)' |
| Configuration: Gena LM bigbird (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.021 pearson-correlation unitless · higher Uncertainty: SE 0.002. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGena LM bigbird on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Gena LM bigbird', column 'NPC (14,042 SNPs)' |
| Configuration: Gena LM large (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.03 pearson-correlation unitless · higher Uncertainty: SE 0.002. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGena LM large on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Gena LM large', column 'NPC (14,042 SNPs)' |
| Configuration: Geneformer (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | −0.002 pearson-correlation unitless · higher Uncertainty: SE 0.138. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Geneformer', column 'NPC (14,042 SNPs)' |
| Configuration: Hyenadna 1 mf (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.001 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenadna 1 mf on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Hyenadna 1 mf', column 'NPC (14,042 SNPs)' |
| Configuration: Hyenadna 160 k (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | −0.007 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenadna 160 k on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Hyenadna 160 k', column 'NPC (14,042 SNPs)' |
| Configuration: Hyenadna 32 k (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.002 pearson-correlation unitless · higher Uncertainty: SE 0.002. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenadna 32 k on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Hyenadna 32 k', column 'NPC (14,042 SNPs)' |
| Configuration: Hyenadna 450 k (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | −0.007 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenadna 450 k on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'Hyenadna 450 k', column 'NPC (14,042 SNPs)' |
| Configuration: NT 2.5b-1000g (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.005 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT 2.5b-1000g on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT 2.5b-1000g', column 'NPC (14,042 SNPs)' |
| Configuration: NT 2.5b-m-s (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.027 pearson-correlation unitless · higher Uncertainty: SE 0.001. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT 2.5b-m-s on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT 2.5b-m-s', column 'NPC (14,042 SNPs)' |
| Configuration: NT 500m-h-ref (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.013 pearson-correlation unitless · higher Uncertainty: SE 0.001. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT 500m-h-ref on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT 500m-h-ref', column 'NPC (14,042 SNPs)' |
| Configuration: NT 500m1000g (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.001 pearson-correlation unitless · higher Uncertainty: SE 0.002. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT 500m1000g on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT 500m1000g', column 'NPC (14,042 SNPs)' |
| Configuration: NT v2-100m-ms (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.016 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT v2-100m-ms on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT v2-100m-ms', column 'NPC (14,042 SNPs)' |
| Configuration: NT v2-250m-ms (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.023 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT v2-250m-ms on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT v2-250m-ms', column 'NPC (14,042 SNPs)' |
| Configuration: NT v2 500m-ms (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.028 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT v2 500m-ms on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT v2 500m-ms', column 'NPC (14,042 SNPs)' |
| Configuration: NT v2-50m-ms (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.02 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT v2-50m-ms on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'NT v2-50m-ms', column 'NPC (14,042 SNPs)' |
| Configuration: SEI (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.073 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceSEI on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'SEI', column 'NPC (14,042 SNPs)' |
| Configuration: TREDNet (Manzo et al. 2025) | Protocol: Allelic reporter effect correlation in NPC (Manzo et al. 2025 Table 1) Dataset: NPC regulatory variant reporter data (Manzo et al. 2025) | 0.075 pearson-correlation unitless · higher Uncertainty: SE 0.003. Standard error as printed in brackets; its basis is not defined in the caption Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceTREDNet on NPC reporter variant effects regulatory-variant-20261009-protocol-manzo2025-npc-pearson Aggregation: Not reported Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants · Table 1 row 'TREDNet', column 'NPC (14,042 SNPs)' |
Source checking is not independent reproduction. Release 2026-10-10-7fcc3e48a123.
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7 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.population 14042 SNPs in NPC per the Table 1 header; lentiMPRA of human-derived variants (Dataset 6) Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.source_locator Table 1 header; Table 4 Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.split Evaluation of variant effects; no variant-level training for CNNs Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.variants 14042 Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.version Manzo et al. Table 4 (as published) Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| description lentiMPRA of human-derived variants (Dataset 6) Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | 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 NPC regulatory variant reporter data (Manzo et al. 2025) Context-only references | Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants Table 1 header; Table 4 Version: Genes 16(10):1223, published 2025-10-15; PMC12562713 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-10-7fcc3e48a123 · Record review: source checked
Stable ID: regulatory-variant-20261009-data-manzo2025-npc