pmseq pathogenic microbial next generation sequencing (ngs) testing  (BGI Shenzhen)

Journal: medRxiv

Article Title: Microbial cell-free DNA sequencing of bronchoalveolar lavage fluid improves diagnostic yield and may add clinical utility in immunocompromised patients with severe pneumonia

doi: 10.1101/2025.11.05.25339543

Figure Lengend Snippet: Flow diagram depicting patient and sample selection for the comparison of BAL fluid mcfDNA sequencing with the Karius® test and standard of care testing.

Article Snippet: Karius® Test Pathogen Categories: The operating characteristics of the Karius® BAL test have recently been submitted for publication.

Techniques: Selection, Comparison, Sequencing

Journal: medRxiv

Article Title: Microbial cell-free DNA sequencing of bronchoalveolar lavage fluid improves diagnostic yield and may add clinical utility in immunocompromised patients with severe pneumonia

doi: 10.1101/2025.11.05.25339543

Figure Lengend Snippet: Additive diagnostic value of BAL fluid mcfDNA sequencing with the Karius® test (KT-BAL) compared to standard of care (SOC) testing in immunocompromised patients with pneumonia. A) Number of organisms across all samples identified by either SOC alone, KT-BAL alone, or both techniques, split by KT-BAL category. B) Organisms identified exclusively by KT-BAL across all samples, split by KT-BAL category.

Article Snippet: Karius® Test Pathogen Categories: The operating characteristics of the Karius® BAL test have recently been submitted for publication.

Techniques: Diagnostic Assay, Sequencing

Journal: medRxiv

Article Title: Microbial cell-free DNA sequencing of bronchoalveolar lavage fluid improves diagnostic yield and may add clinical utility in immunocompromised patients with severe pneumonia

doi: 10.1101/2025.11.05.25339543

Figure Lengend Snippet: Analysis of microbial read and human read values reported by the BAL fluid Karius® test (KT-BAL). A) Organisms that are identified in at least five samples by both KT-BAL and standard of care (SOC) testing and in at least five other samples by only KT-BAL have significantly lower microbial read values in the SOC + KT-BAL samples (Mann-Whitney U test, FDR < 0.05). B) KT-BAL microbial read values strongly correlate with culture quantities from SOC (Spearman’s rank correlation). C) KT-BAL human read values do not correlate with markers of host immune response (Spearman’s rank correlation).

Article Snippet: Karius® Test Pathogen Categories: The operating characteristics of the Karius® BAL test have recently been submitted for publication.

Techniques: MANN-WHITNEY

Journal: medRxiv

Article Title: Microbial cell-free DNA sequencing of bronchoalveolar lavage fluid improves diagnostic yield and may add clinical utility in immunocompromised patients with severe pneumonia

doi: 10.1101/2025.11.05.25339543

Figure Lengend Snippet: Patients for whom BAL fluid mcfDNA testing with the Karius® test (KT-BAL) identified Category One or Two organisms missed by standard of care (SOC) had significantly more cumulative intubation days compared to patients where KT-BAL and SOC were concordant for all Category One or Two organisms. Hospital length of stay, ICU length of stay, and ICU mortality were worse in the KT-BAL only group, but these differences were not significant (Mann-Whitney U test for continuous variables, Fisher’s exact test for mortality).

Article Snippet: Karius® Test Pathogen Categories: The operating characteristics of the Karius® BAL test have recently been submitted for publication.

Techniques: MANN-WHITNEY