| Configuration: ABC_A=DNase, C=Average ENCODE Hi-C (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.465 auprc fraction · higher Uncertainty: 95% CI 0.378228901913079 to 0.541415553632906 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceABC_A=DNase, C=Average ENCODE Hi-C on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 2 (D2:F2); Dataset 'Held-out', Predictor 'ABC_A=DNase, C=Average ENCODE Hi-C', metric 'Weighted AUPRC' |
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| Configuration: ABC_A=DNase, C=Average ENCODE Hi-C (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.437 precision fraction · higher Uncertainty: 95% CI 0.375298718902513 to 0.497269228021238 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceABC_A=DNase, C=Average ENCODE Hi-C on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 8 (D8:F8); Dataset 'Held-out', Predictor 'ABC_A=DNase, C=Average ENCODE Hi-C', metric 'Weighted precision at threshold' |
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| Configuration: ABC_A=DNase, C=Average ENCODE Hi-C (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.619 recall fraction · higher Uncertainty: 95% CI 0.547527036355901 to 0.688813573106359 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceABC_A=DNase, C=Average ENCODE Hi-C on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 14 (D14:F14); Dataset 'Held-out', Predictor 'ABC_A=DNase, C=Average ENCODE Hi-C', metric 'Weighted recall at threshold' |
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| Configuration: Distance to TSS (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.363 auprc fraction · higher Uncertainty: 95% CI 0.281241216228264 to 0.437896240213437 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceDistance to TSS on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 6 (D6:F6); Dataset 'Held-out', Predictor 'Distance to TSS', metric 'Weighted AUPRC' |
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| Configuration: Distance to TSS (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.245 precision fraction · higher Uncertainty: 95% CI 0.202048095028741 to 0.288268461392336 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceDistance to TSS on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 12 (D12:F12); Dataset 'Held-out', Predictor 'Distance to TSS', metric 'Weighted precision at threshold' |
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| Configuration: Distance to TSS (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.584 recall fraction · higher Uncertainty: 95% CI 0.511553237372335 to 0.655007748643397 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceDistance to TSS on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 18 (D18:F18); Dataset 'Held-out', Predictor 'Distance to TSS', metric 'Weighted recall at threshold' |
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| Configuration: ENCODE-rE2G (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.556 auprc fraction · higher Uncertainty: 95% CI 0.467852411496632 to 0.631223913857611 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceENCODE-rE2G on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 3 (D3:F3); Dataset 'Held-out', Predictor 'ENCODE-rE2G', metric 'Weighted AUPRC' |
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| Configuration: ENCODE-rE2G (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.544 precision fraction · higher Uncertainty: 95% CI 0.473562214144615 to 0.614971149178317 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceENCODE-rE2G on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 9 (D9:F9); Dataset 'Held-out', Predictor 'ENCODE-rE2G', metric 'Weighted precision at threshold' |
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| Configuration: ENCODE-rE2G (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.599 recall fraction · higher Uncertainty: 95% CI 0.526506289907121 to 0.670411257697732 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceENCODE-rE2G on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 15 (D15:F15); Dataset 'Held-out', Predictor 'ENCODE-rE2G', metric 'Weighted recall at threshold' |
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| Configuration: Correlation_E-P DNase-seq signal (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.211 auprc fraction · higher Uncertainty: 95% CI 0.155299843477219 to 0.267454116811189 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCorrelation_E-P DNase-seq signal on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 7 (D7:F7); Dataset 'Held-out', Predictor 'Correlation_E-P DNase-seq signal', metric 'Weighted AUPRC' |
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| Configuration: Correlation_E-P DNase-seq signal (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.112 precision fraction · higher Uncertainty: 95% CI 0.09490444 to 0.130640831462308 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCorrelation_E-P DNase-seq signal on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 13 (D13:F13); Dataset 'Held-out', Predictor 'Correlation_E-P DNase-seq signal', metric 'Weighted precision at threshold' |
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| Configuration: Correlation_E-P DNase-seq signal (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.737 recall fraction · higher Uncertainty: 95% CI 0.669820594780111 to 0.79971637 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCorrelation_E-P DNase-seq signal on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 19 (D19:F19); Dataset 'Held-out', Predictor 'Correlation_E-P DNase-seq signal', metric 'Weighted recall at threshold' |
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| Configuration: EpiMap (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.268 auprc fraction · higher Uncertainty: 95% CI 0.202767496369732 to 0.342972872868445 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEpiMap on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 5 (D5:F5); Dataset 'Held-out', Predictor 'EpiMap', metric 'Weighted AUPRC' |
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| Configuration: EpiMap (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.292 precision fraction · higher Uncertainty: 95% CI 0.244244656893669 to 0.342593944957384 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEpiMap on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 11 (D11:F11); Dataset 'Held-out', Predictor 'EpiMap', metric 'Weighted precision at threshold' |
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| Configuration: EpiMap (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.545 recall fraction · higher Uncertainty: 95% CI 0.471122984227133 to 0.616597040982763 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEpiMap on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 17 (D17:F17); Dataset 'Held-out', Predictor 'EpiMap', metric 'Weighted recall at threshold' |
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| Configuration: EPIraction (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.383 auprc fraction · higher Uncertainty: 95% CI 0.302549537433103 to 0.455764606497437 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEPIraction on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 4 (D4:F4); Dataset 'Held-out', Predictor 'EPIraction', metric 'Weighted AUPRC' |
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| Configuration: EPIraction (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.347 precision fraction · higher Uncertainty: 95% CI 0.292942536891562 to 0.401809875530837 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEPIraction on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 10 (D10:F10); Dataset 'Held-out', Predictor 'EPIraction', metric 'Weighted precision at threshold' |
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| Configuration: EPIraction (Gschwind et al. 2026) | Protocol: Held-out CRISPR enhancer-gene benchmark, weighted metrics, five cell types (Gschwind et al. 2026 Supplementary Table 3) Dataset: Held-out CRISPR enhancer-gene pairs in five cell types (Gschwind et al. 2026) | 0.596 recall fraction · higher Uncertainty: 95% CI 0.525947724997951 to 0.666054834012973 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEPIraction on held-out CRISPR pairs, five cell types regulatory-variant-20261009-protocol-gschwind2026-heldout-weighted Aggregation: Not reported An encyclopedia of human enhancer-gene regulatory interactions; Gschwind et al. 2026, Supplementary Table 3 · Supplementary Table 3 'Held-out benchmarks', row 16 (D16:F16); Dataset 'Held-out', Predictor 'EPIraction', metric 'Weighted recall at threshold' |
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