Real plasma cohort used by Sun et al. 2024 to test deconvolution-based disease detection.
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Release 2026-10-09-8cc1db47c7f9 · Evidence verified: Not verified
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5 evaluations · 5 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: CelFEER (Sun et al. 2024 benchmark) | Protocol: Sun et al. 2024 liver cancer detection from deconvolved plasma WGBS (ROC-AUC) Dataset: Plasma cfDNA WGBS, 24 liver cancer patients and 32 healthy individuals (EGAD00001000856) | 0.96 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCelFEER deconvolution, disease detection AUC (liver cancer WGBS) ctdnameth-20261009-protocol-sun2024-hcc-wgbs-detection-auc Aggregation: Not reported Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA; Sun et al. 2024, Additional file 1 (Tables S1-S8) · Sun Additional file 1, sheet 'Table S7 ', I4; row 'Liver cancer (WGBS)'; column 'CelFEER' under 'AUC values' |
| Configuration: CelFiE (Sun et al. 2024 benchmark) | Protocol: Sun et al. 2024 liver cancer detection from deconvolved plasma WGBS (ROC-AUC) Dataset: Plasma cfDNA WGBS, 24 liver cancer patients and 32 healthy individuals (EGAD00001000856) | 0.93 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCelFiE deconvolution, disease detection AUC (liver cancer WGBS) ctdnameth-20261009-protocol-sun2024-hcc-wgbs-detection-auc Aggregation: Not reported Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA; Sun et al. 2024, Additional file 1 (Tables S1-S8) · Sun Additional file 1, sheet 'Table S7 ', J4; row 'Liver cancer (WGBS)'; column 'CelFiE' under 'AUC values' |
| Configuration: cfNOMe (Sun et al. 2024 benchmark) | Protocol: Sun et al. 2024 liver cancer detection from deconvolved plasma WGBS (ROC-AUC) Dataset: Plasma cfDNA WGBS, 24 liver cancer patients and 32 healthy individuals (EGAD00001000856) | 0.77 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcecfNOMe deconvolution, disease detection AUC (liver cancer WGBS) ctdnameth-20261009-protocol-sun2024-hcc-wgbs-detection-auc Aggregation: Not reported Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA; Sun et al. 2024, Additional file 1 (Tables S1-S8) · Sun Additional file 1, sheet 'Table S7 ', K4; row 'Liver cancer (WGBS)'; column 'cfNOMe' under 'AUC values' |
| Configuration: MethAtlas (Sun et al. 2024 benchmark) | Protocol: Sun et al. 2024 liver cancer detection from deconvolved plasma WGBS (ROC-AUC) Dataset: Plasma cfDNA WGBS, 24 liver cancer patients and 32 healthy individuals (EGAD00001000856) | 0.91 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceMethAtlas deconvolution, disease detection AUC (liver cancer WGBS) ctdnameth-20261009-protocol-sun2024-hcc-wgbs-detection-auc Aggregation: Not reported Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA; Sun et al. 2024, Additional file 1 (Tables S1-S8) · Sun Additional file 1, sheet 'Table S7 ', L4; row 'Liver cancer (WGBS)'; column 'MethAtlas' under 'AUC values' |
| Configuration: UXM (Sun et al. 2024 benchmark) | Protocol: Sun et al. 2024 liver cancer detection from deconvolved plasma WGBS (ROC-AUC) Dataset: Plasma cfDNA WGBS, 24 liver cancer patients and 32 healthy individuals (EGAD00001000856) | 0.72 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceUXM deconvolution, disease detection AUC (liver cancer WGBS) ctdnameth-20261009-protocol-sun2024-hcc-wgbs-detection-auc Aggregation: Not reported Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA; Sun et al. 2024, Additional file 1 (Tables S1-S8) · Sun Additional file 1, sheet 'Table S7 ', M4; row 'Liver cancer (WGBS)'; column 'UXM' under 'AUC values' |
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10 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.access Controlled access through EGA Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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.accession EGAD00001000856 Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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.assay Plasma cfDNA whole-genome bisulfite sequencing; Bismark v0.24.2 alignment to hg38, deduplication, wgbstools pat files Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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.negatives 32 Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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.population 24 liver cancer (hepatocellular carcinoma) patients and 32 healthy individuals Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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.positives 24 Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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 Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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 EGA EGAD00001000856 (Chan et al. 2013, PNAS) as reprocessed by Sun et al. 2024 Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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 Real plasma cohort used by Sun et al. 2024 to test deconvolution-based disease detection. Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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 Plasma cfDNA WGBS, 24 liver cancer patients and 32 healthy individuals (EGAD00001000856) Context-only references | Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA Sun et al. 2024, Methods 'Data collection and processing' (P30) and Results 'Evaluation of deconvolution results on real-world clinical settings' (P20) Version: Genome Biology 25:318, published 2024-12-19; PMC11660681.1 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 2026-10-09-8cc1db47c7f9 · Record review: source checked
Stable ID: ctdnameth-20261009-data-sun2024-hcc-plasma-wgbs