Result

Enrichment factor (EF at the top 1% of the ranked library, median over the 79 DEKOIS 2.0 targets) of PLANET rescoring of Protenix top-ranked poses on DEKOIS 2.0, 79 targets as scored by Shen et al. 2025

2.38 Enrichment factor (EF at the top 1% of the ranked library, median over the 79 DEKOIS 2.0 targets)

Methods

Tested configuration: PLANET rescoring of Protenix top-ranked poses
Protocol: DEKOIS 2.0 screening by rescoring Protenix-predicted complexes (Shen et al. 2025 Table 2, Protenix block)
Dataset: DEKOIS 2.0, 79 targets as scored by Shen et al. 2025
Procedure: DEKOIS 2.0 screening by rescoring Protenix-predicted complexes (Shen et al. 2025 Table 2, Protenix block)
Evaluation: PLANET on Protenix-predicted DEKOIS 2.0 complexes (Shen et al. 2025 Table 2)
Coverage: Not reported scored / Not reported eligible
Uncertainty: Not reported by the source: The source prints no interval or spread for this value
Evidence: Author-reported evaluation · source checkedShen et al. 2025, Chemical Science (Europe PMC full text) · Table 2, Protenix block, row 'PLANET', column 'EF1%' (Med)

A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: source checked. Source checked does not mean independently reproduced.

Reproduction

Split: All 79 evaluated targets; no training or test split applies
Adaptation: None; pretrained models and default or recommended settings
Scoring implementation: AUROC, BEDROC with alpha = 80.5 (the top 2% of the ranked list contributes 80% of the score), and enrichment factors at 0.5%, 1% and 5%, each reported as the mean and the median over targets. EFx% is the ratio of true positives found in the top x% of the ranked compounds relative to random selection.

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.

1 evidence row matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance
Reported result 2.38 Individual claims	Shen et al. 2025, Chemical Science (Europe PMC full text) Original source ↗ Table 2, Protenix block, row 'PLANET', column 'EF1%' (Med) Version: PMC12704515 (Chem Sci, published 2025-12-11) Retrieved: 2026-10-22T11:52:32Z	source checked ["independent-cell-check","deterministic-table-parse"] · 2026-10-22 author reported Audit details Checked against the pinned source by an automated independent re-parse. Transcription checked; not reproduced and not reviewed by a human scientist. Field: `attributes.printed_value` Source artifact SHA-256: `11a4cee97057d9e72f9393024d22fdd169e3134f493367eee2f7869facf9ccf8` Hash scope: Hash scope not separately documented; inspect source record Extraction artifact SHA-256: `11a4cee97057d9e72f9393024d22fdd169e3134f493367eee2f7869facf9ccf8` Extraction artifact

How to read the evidence

Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

1 source record and release history

Shen et al. 2025, Chemical Science (Europe PMC full text) · Original source · PMC12704515 (Chem Sci, published 2025-12-11)

Download this release (gzip)

Technical metadata and extraction receipts

Stable ID: hitdisc-20261022-result-dekois-rescore-protenix-rescore-planet-on-protenix-poses-enrichment-factor-ef1pct-med

metric: enrichment-factor
metric direction: higher
unit: unitless
metric qualifier: EF at the top 1% of the ranked library, median over the 79 DEKOIS 2.0 targets
printed value: 2.38
numeric value: 2.38
source locator: Table 2, Protenix block, row 'PLANET', column 'EF1%' (Med)
missing metadata: uncertainty: reason: unreported; note: The source prints no interval or spread for this value
review: method: independent-cell-check; deterministic-table-parse; reviewer: claude; reviewer note: Claude review agent, independent of the extraction agent; no human review claimed; date: 2026-10-22; method note: Re-downloaded the pinned Europe PMC XML, matched its SHA-256, and re-parsed Tables 1 to 5 with a parser written for this review (myparse_shen.py), independent of the extractor's build_batch.py. Every printed value, row label and column header compared; the parser was proved on six seeded errors.; note: Checked against the pinned source by an automated independent re-parse. Transcription checked; not reproduced and not reviewed by a human scientist.; artifact sha256: 11a4cee97057d9e72f9393024d22fdd169e3134f493367eee2f7869facf9ccf8; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12704515/fullTextXML; receipt: data/omics/use-case-coverage-hitdisc-20261022/review.json
source table: Table 2

Related records

evaluation: PLANET on Protenix-predicted DEKOIS 2.0 complexes (Shen et al. 2025 Table 2)

Suggest a correction