Protocol

CPPC reimplemented best-model Challenge 2 score

Table S2 column J: author reimplementation best model, training all Screen1 data including seven former holdouts. Separate from submitted methods; exact best predictor/hyperparameters per row unextracted.

13 evaluations · 13 results

Overview

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

13 recorded evaluations, 13 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.

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Results

Results are available, but no reviewed comparison panel is linked in this release.

All evaluations

13 evaluations · 13 results. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: CPPC reimplemented best model row 12 (5Features)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.519 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 12 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J12; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 16 (scETM)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.49 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 16 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J16; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 2 (PPI_Weighted)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.531 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 2 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J2; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 22 (GO-node2vec)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.544 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 22 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J22; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 23 (Matrix_completion)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.586 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 23 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J23; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 24 (GeneVector)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.48 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 24 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J24; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 3 (GWPS_K562 (H2M))	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.629 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 3 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J3; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 4 (14Features)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.538 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 4 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J4; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 5 (scBERT)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.514 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 5 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J5; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 6 (scVI)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.577 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 6 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J6; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 7 (Expression_Conditioned)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.543 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 7 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J7; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 8 (Exon)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.501 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 8 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J8; raw XLSX numeric value (not rounded display)
Configuration: CPPC reimplemented best model row 9 (Gene2Vec)	Protocol: CPPC reimplemented best-model Challenge 2 score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.506 reimplemented-best-topk-overlap-auc score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source cppc table s2 j row 9 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell J9; raw XLSX numeric value (not rounded display)

Source checking is not independent reproduction. Release 2026-09-30-e37e3ab1284d.

Methods and evaluation design

Procedure, tasks and evaluated configurations

Evaluation design

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Benchmarks

Cancer Immunotherapy Data Science Challenge

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Recorded evaluations

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Baseline coverage

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0 of 2 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.

No execution recipe linked to this protocol. Recipe availability does not establish a completed evaluation.

Author-reported evaluations: 13

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Protocol coverage CSV · Model evaluation matrix · Source table · Release and checksums

Coverage is derived from release 2026-09-30-e37e3ab1284d. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.

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Strengths, limitations and unresolved questions

Evidence

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Evidence table

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3 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-09-30-e37e3ab1284d
Property and statement	Original source and location	Review and provenance
Relationship: part of ucc-research-benchmark-cppc Individual claims	Cancer Immunotherapy Data Science Challenge official code Original source ↗ Challenge setup and results; Supplementary Table S2 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 283328a9b8afc6e882eeb503ac4710bbe9f37371 Retrieved: 2026-09-30T21:26:16Z	source checked automated source review · 2026-09-30T21:43:56Z Audit details Primary-source table transcription and scope review; no independent reproduction or human scientific review. Field: `links:part_of:ucc-research-benchmark-cppc` Claim: ucc-research-membership-cppc-challenge2-reimplemented-best Source artifact SHA-256: `Not recorded` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Relationship: part of ucc-research-benchmark-cppc Individual claims	Cancer Immunotherapy Data Science Challenge Original source ↗ Challenge setup and results; Supplementary Table S2 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 10.64898/2026.05.21.726863v1; 2026 preprint Retrieved: 2026-09-30T21:23:33Z	source checked automated source review · 2026-09-30T21:43:56Z Audit details Primary-source table transcription and scope review; no independent reproduction or human scientific review. Field: `links:part_of:ucc-research-benchmark-cppc` Claim: ucc-research-membership-cppc-challenge2-reimplemented-best Source artifact SHA-256: `Not recorded` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Relationship: part of ucc-research-benchmark-cppc Individual claims	CPPC Table S2 original and reimplemented submission comparisons Original source ↗ Challenge setup and results; Supplementary Table S2 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Table S2 media-3.xlsx, 10.64898/2026.05.21.726863v1 Retrieved: 2026-09-30T21:40:24Z	source checked automated source review · 2026-09-30T21:43:56Z Audit details Primary-source table transcription and scope review; no independent reproduction or human scientific review. Field: `links:part_of:ucc-research-benchmark-cppc` Claim: ucc-research-membership-cppc-challenge2-reimplemented-best Source artifact SHA-256: `ed480039c8008fdfcedaa50a8248d32df6068a9230a18ab6953ada5535865105` Hash scope: Hash scope not separately documented; inspect source record Archive member: media-3.xlsx Inspected artifact

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Sources and history

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Release 2026-09-30-e37e3ab1284d · Record review: source checked

2 source records and release history

Cancer Immunotherapy Data Science Challenge · Original source · 10.64898/2026.05.21.726863v1; 2026 preprint
CPPC Table S2 original and reimplemented submission comparisons · Original source · Table S2 media-3.xlsx, 10.64898/2026.05.21.726863v1

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Technical metadata and extraction receipts

Stable ID: ucc-research-protocol-cppc-challenge2-reimplemented-best

review: method: automated_source_review; actor: Codex research coverage worker; reviewed at: 2026-09-30T21:43:56Z; note: Primary-source table transcription and scope review; no independent reproduction or human scientific review.
selection: post-hoc best-model column; no uncertainty printed
metric definition: Custom ranking AUC as reported by Table S2 best-model column; per-objective details unextracted; do not equate with original final aggregate.

Related records

dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens
part of: Cancer Immunotherapy Data Science Challenge
protocol: cppc table s2 j row 12
protocol: cppc table s2 j row 16
protocol: cppc table s2 j row 2
protocol: cppc table s2 j row 22
protocol: cppc table s2 j row 23
protocol: cppc table s2 j row 24
protocol: cppc table s2 j row 3
protocol: cppc table s2 j row 4
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protocol: cppc table s2 j row 6
protocol: cppc table s2 j row 7
protocol: cppc table s2 j row 8
protocol: cppc table s2 j row 9
subject: Source membership: ucc-research-protocol-cppc-challenge2-reimplemented-best

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