Protocol

CPPC original Challenge 2 prospective target ranking score

Custom top-k overlap AUC, not ROC AUC. Three objectives; minimum of mean scores using filtered versus unfiltered Screen2. Tested genes were selected from leading Challenge1 nominations, not an unbiased genome-wide sample.

20 evaluations · 20 results

Overview

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

20 recorded evaluations, 20 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

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All evaluations

20 evaluations · 20 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 original submission row 11 (unnamed method)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.502 robust-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 d row 11 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D11; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 12 (5Features)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.542 robust-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 d 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 D12; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 13 (unnamed method)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.532 robust-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 d row 13 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D13; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 14 (unnamed method)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.547 robust-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 d row 14 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D14; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 15 (unnamed method)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.542 robust-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 d row 15 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D15; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 16 (scETM)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.557 robust-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 d 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 D16; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 17 (scTenifoldNet)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.556 robust-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 d row 17 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D17; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 18 (GO_knn)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.53 robust-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 d row 18 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D18; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 19 (LowExp)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.533 robust-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 d row 19 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D19; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 2 (PPI_Weighted)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.519 robust-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 d 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 D2; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 20 (unnamed method)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.538 robust-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 d row 20 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D20; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 21 (interv)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.532 robust-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 d row 21 Not reported Aggregation: Not reported CPPC Table S2 original and reimplemented submission comparisons · Supplementary Table S2; media-3.xlsx sheet 'Challenge 1 & 2'; cell D21; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 22 (GO-node2vec)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.561 robust-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 d 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 D22; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 23 (Matrix_completion)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.487 robust-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 d 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 D23; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 24 (GeneVector)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.477 robust-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 d 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 D24; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 3 (GWPS_K562 (H2M))	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.506 robust-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 d 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 D3; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 4 (14Features)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.512 robust-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 d 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 D4; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 5 (scBERT)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.508 robust-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 d 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 D5; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 6 (scVI)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.452 robust-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 d 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 D6; raw XLSX numeric value (not rounded display)
Configuration: CPPC original submission row 7 (Expression_Conditioned)	Protocol: CPPC original Challenge 2 prospective target ranking score Dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens	0.566 robust-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 d 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 D7; raw XLSX numeric value (not rounded display)

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Cancer Immunotherapy Data Science Challenge

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Author-reported evaluations: 20

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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-original 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-original 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-original 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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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-original

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.
metric definition: Area under fraction of shared top-k genes versus normalized list size; source final aggregation is minimum of filtered/unfiltered three-objective means.
selection bias: Screen2 target universe enriched by Challenge1 winning nominations; not full untested genome validation.

Related records

dataset: CPPC B16-OVA mouse melanoma T-cell perturbation screens
part of: Cancer Immunotherapy Data Science Challenge
protocol: cppc table s2 d row 11
protocol: cppc table s2 d row 12
protocol: cppc table s2 d row 13
protocol: cppc table s2 d row 14
protocol: cppc table s2 d row 15
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protocol: cppc table s2 d row 6
protocol: cppc table s2 d row 7
subject: Source membership: ucc-research-protocol-cppc-challenge2-original

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