Protocol

Hou et al. 2024 independent validation, Mathios et al. independent lung 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.

View coverage and remaining gaps across all benchmarks

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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.535 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C32; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.174 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E32; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.0652 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D32; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.84 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C27; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.652 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E27; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.457 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D27; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.83 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C28; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.696 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E28; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.522 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D28; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.867 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C23; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.674 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E23; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.478 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D23; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.939 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C26; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.848 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E26; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.717 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D26; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (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 FSR (open chromatin), independent validation on Mathios et al. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C25; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.5 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E25; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.348 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D25; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.838 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C30; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.652 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E30; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.457 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D30; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.823 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C29; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.674 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, E29; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.522 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, D29; data set 'Mathios et al. independent 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. independent lung cohort (Table S3) Dataset: Mathios et al. 2021 independent lung cohort, 46 lung cancer and 385 healthy (as used by Hou et al. 2024)	0.81 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. independent dataset (LUNG) ctdnafrag-20261009-protocol-hou2024-mathios-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, C24; data set 'Mathios et al. independent 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-independent

areas: dna-genomes
contexts: clinical_research
protocol: SVM trained on Cristiano et al. lung cancer samples and controls, applied to the Mathios et al. independent 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.; 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 23-32; Experimental Section P41, P44, P45

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