Negative predictive value (patient level; gram-negative bacterial pneumonia; reference: final clinical diagnosis) of Geneplus broad-spectrum targeted NGS of microbial cell-free DNA (bstNGS), as run in Huang et al. 2026 on 122 ICU patients with severe pneumonia-associated sepsis and paired blood and BALF (Huang et al. 2026)
50.6% Negative predictive value (patient level; gram-negative bacterial pneumonia; reference: final clinical diagnosis)
Methods
- Tested configuration
- Geneplus broad-spectrum targeted NGS of microbial cell-free DNA (bstNGS), as run in Huang et al. 2026
- Protocol
- Patient-level detection of causative pathogens in blood against the final clinical diagnosis (Huang et al. 2026 Table 2)
- Dataset
- 122 ICU patients with severe pneumonia-associated sepsis and paired blood and BALF (Huang et al. 2026)
- Procedure
- Patient-level detection of causative pathogens in blood against the final clinical diagnosis (Huang et al. 2026 Table 2)
- Evaluation
- Blood-bstNGS against the final clinical diagnosis (Huang et al. 2026)
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- 95% CI 39.84 to 61.37
- Evidence
- Author-reported evaluation · source checkedBlood-based targeted sequencing of microbial cell-free DNA in severe pneumonia-associated sepsis · Table 2, stratum 'GNB pneumonia', row 'Blood-bstNGS', column 'NPV (95%CI)'
A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: source checked. Source checked does not mean independently reproduced.
Reproduction
- Split
- Single cohort
- Adaptation
- VAMNE Magnetic Pathogen DNA/RNA extraction; HieffNGS C37P4 One Pot cDNA&gDNA library; 4 h hybridisation with Geneplus probes (1,872 organisms, STable 1) on Gene+GIN96; Gene+Seq-100 at 5 M reads; Gene+P-Seq-Tool Kits; reportable at RPM >= 6 for common pathogens and >= 0.5 for fungi and mycobacteria
- Scoring implementation
- Patient-level sensitivity, specificity, PPV, NPV and accuracy against the final clinical diagnosis
No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.
Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Reported result 50.63% Individual claims | Blood-based targeted sequencing of microbial cell-free DNA in severe pneumonia-associated sepsis Table 2, stratum 'GNB pneumonia', row 'Blood-bstNGS', column 'NPV (95%CI)' Version: Respiratory Research 27:357, published 2026-06-24; PMC13584460 full-text XML | source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-11 author reported Audit detailsRe-downloaded the pinned artifact and matched its SHA-256; compared every value with a separate stdlib parser written for this review (the extractor's script was not run) and checked a stratified sample by hand against the rendered table. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Extraction artifact SHA-256: |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- Blood-based targeted sequencing of microbial cell-free DNA in severe pneumonia-associated sepsis · Original source · Respiratory Research 27:357, published 2026-06-24; PMC13584460 full-text XML
Technical metadata and extraction receipts
Stable ID: dna-pathogen-20261011-huang2026-result-gnb-bstngs-npv
- metric
- negative-predictive-value
- metric direction
- higher
- unit
- percent
- printed value
- 50.63%
- numeric value
- 50.63
- metric qualifier
- patient level; gram-negative bacterial pneumonia; reference: final clinical diagnosis
- uncertainty
- type: confidence_interval; lower: 39.84; upper: 61.37; level: 0.95; printed: (39.84% − 61.37%)
- source locator
- Table 2, stratum 'GNB pneumonia', row 'Blood-bstNGS', column 'NPV (95%CI)'
- review
- method: source-hash-verification; deterministic-table-parse; independent-cell-check; reviewer: claude; reviewer note: Separate Claude review agent (reviewer-path), independent of the extractor; no human review claimed; date: 2026-10-11; artifact sha256: 79b237d733d9ad3af33722c30013afb0539adf03098ca1e1c2f18344bcc4a67d; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC13584460/fullTextXML; method note: Extracted by deterministic parse of the pinned Europe PMC full-text XML (extract/extract_huang2026.py), with stratum, row and column labels asserted. printed_value is the value before the interval exactly as printed.; note: Re-downloaded the pinned artifact and matched its SHA-256; compared every value with a separate stdlib parser written for this review (the extractor's script was not run) and checked a stratified sample by hand against the rendered table.