Protocol

Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3)

Fragmentation pattern comparison by Hou et al. 2024.

Overview

Fragmentation pattern comparison by Hou et al. 2024.

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

10 recorded evaluations, 30 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

10 evaluations · 30 results. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Fragment 5' end motif (4-mer), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.551 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source EDM (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C22; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'EDM'; column 'AUC'
Configuration: Fragment 5' end motif (4-mer), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.256 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source EDM (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E22; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'EDM'; column 'Sensitivity @85% specificity'
Configuration: Fragment 5' end motif (4-mer), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.0775 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source EDM (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D22; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'EDM'; column 'Sensitivity @95% specificity'
Configuration: Fragment coverage (fragment midpoint counts), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.731 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source coverage (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C17; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'coverage'; column 'AUC'
Configuration: Fragment coverage (fragment midpoint counts), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.543 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source coverage (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E17; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'coverage'; column 'Sensitivity @85% specificity'
Configuration: Fragment coverage (fragment midpoint counts), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.271 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source coverage (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D17; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'coverage'; column 'Sensitivity @95% specificity'
Configuration: Fragment endpoint counts, open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.733 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source end (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C18; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'end'; column 'AUC'
Configuration: Fragment endpoint counts, open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.504 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source end (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E18; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'end'; column 'Sensitivity @85% specificity'
Configuration: Fragment endpoint counts, open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.279 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source end (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D18; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'end'; column 'Sensitivity @95% specificity'
Configuration: Fragment length distribution, open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.664 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source length (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C13; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'length'; column 'AUC'
Configuration: Fragment length distribution, open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.341 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source length (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E13; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'length'; column 'Sensitivity @85% specificity'
Configuration: Fragment length distribution, open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.202 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source length (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D13; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'length'; column 'Sensitivity @95% specificity'
Configuration: Fragment size distribution (FSD), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.546 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source FSD (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C16; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'FSD'; column 'AUC'
Configuration: Fragment size distribution (FSD), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.194 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source FSD (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E16; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'FSD'; column 'Sensitivity @85% specificity'
Configuration: Fragment size distribution (FSD), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.101 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source FSD (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D16; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'FSD'; column 'Sensitivity @95% specificity'
Configuration: Fragment size ratio (FSR), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.691 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source FSR (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C15; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'FSR'; column 'AUC'
Configuration: Fragment size ratio (FSR), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.38 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source FSR (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E15; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'FSR'; column 'Sensitivity @85% specificity'
Configuration: Fragment size ratio (FSR), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.233 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source FSR (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D15; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'FSR'; column 'Sensitivity @95% specificity'
Configuration: Integrated fragmentation score (IFS), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.729 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source IFS (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C20; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'IFS'; column 'AUC'
Configuration: Integrated fragmentation score (IFS), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.558 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source IFS (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E20; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'IFS'; column 'Sensitivity @85% specificity'
Configuration: Integrated fragmentation score (IFS), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.271 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source IFS (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D20; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'IFS'; column 'Sensitivity @95% specificity'
Configuration: Orientation-aware cell-free fragmentation (OCF), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.69 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source OCF (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C19; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'OCF'; column 'AUC'
Configuration: Orientation-aware cell-free fragmentation (OCF), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.388 sensitivity-at-85-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source OCF (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, E19; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'OCF'; column 'Sensitivity @85% specificity'
Configuration: Orientation-aware cell-free fragmentation (OCF), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.233 sensitivity-at-95-percent-specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source OCF (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, D19; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'OCF'; column 'Sensitivity @95% specificity'
Configuration: Promoter fragmentation entropy (PFE), open chromatin regions, SVM (Hou et al. 2024)	Protocol: Hou et al. 2024 independent validation, Mathios et al. LUCAS cohort (Table S3) Dataset: Mathios et al. 2021 LUCAS cohort, 129 lung cancer and 158 non-cancer (as used by Hou et al. 2024)	0.706 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source PFE (open chromatin), independent validation on Mathios et al. LUCAS dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent Aggregation: Not reported Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns; Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Supporting Information sheet S3, C14; data set 'Mathios et al. LUCAS dataset (LUNG)'; row 'PFE'; column 'AUC'

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Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns · Original source · Advanced Science 11(30):e2308243, published 2024-06-17; PMC11321639 full-text XML
Hou et al. 2024, Supporting Information workbook (Tables S1-S15) · Original source · ADVS-11-2308243-s001.xlsx, PMC open-access copy PMC11321639.1

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Technical metadata and extraction receipts

Stable ID: ctdnafrag-20261009-protocol-hou2024-mathios-lucas-independent

areas: dna-genomes
contexts: clinical_research
protocol: SVM trained on Cristiano et al. lung cancer samples and controls, applied to the LUCAS cohort. Report ROC-AUC and sensitivity at 95% and at 85% specificity.
version: Hou et al. 2024 Supporting Information; Methods P41, P44, P45
metric: auroc
metric direction: higher
limitations: Table S3 sensitivities have no second table to check them against; two blocks of Table S2 in the same file are disputed.; Ten fragmentation patterns restricted to open chromatin regions, one SVM each; no tumour-fraction stratification.; LUCAS includes 67 benign-nodule patients among the non-cancer group.; Training set has 12 lung cancer patients.; IFS was defined by Hou et al.'s corresponding author (Zhou et al. 2022, ref 10), so its evaluations are author-reported; the other nine patterns are independent re-implementations.
source locator: Supporting Information Table S3 rows 13-22; Experimental Section P41, P44, P45

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