Machine learning for antimicrobial resistance prediction: current practice, limitations, and clinical perspective

JI Kim, F Maguire, KK Tsang, T Gouliouris… - Clinical microbiology …, 2022 - Am Soc Microbiol
Antimicrobial resistance (AMR) is a global health crisis that poses a great threat to modern
medicine. Effective prevention strategies are urgently required to slow the emergence and …

[HTML][HTML] Culture-independent detection systems for bloodstream infection

AM Peri, PNA Harris, DL Paterson - Clinical Microbiology and Infection, 2022 - Elsevier
Background Sepsis and bloodstream infection are associated with significant morbidity and
mortality, and early effective antimicrobial therapy has been demonstrated to improve patient …

[HTML][HTML] Integrated host-microbe plasma metagenomics for sepsis diagnosis in a prospective cohort of critically ill adults

KL Kalantar, L Neyton, M Abdelghany, E Mick… - Nature …, 2022 - nature.com
We carried out integrated host and pathogen metagenomic RNA and DNA next generation
sequencing (mNGS) of whole blood (n= 221) and plasma (n= 138) from critically ill patients …

Plasma microbial cell-free DNA next-generation sequencing in the diagnosis and management of febrile neutropenia

E Benamu, K Gajurel, JN Anderson… - Clinical Infectious …, 2022 - academic.oup.com
Background Standard testing fails to identify a pathogen in most patients with febrile
neutropenia (FN). We evaluated the ability of the Karius microbial cell-free DNA sequencing …

Clinical evaluation of an improved metagenomic next-generation sequencing test for the diagnosis of bloodstream infections

C Jing, H Chen, Y Liang, Y Zhong, Q Wang… - Clinical …, 2021 - academic.oup.com
Background Metagenomic next-generation sequencing (mNGS) of plasma cell-free DNA
has emerged as a promising diagnostic technology for bloodstream infections. However, a …

Phage diversity in cell-free DNA identifies bacterial pathogens in human sepsis cases

NL Haddock, LJ Barkal, N Ram-Mohan, G Kaber… - Nature …, 2023 - nature.com
Bacteriophages, viruses that infect bacteria, have great specificity for their bacterial hosts at
the strain and species level. However, the relationship between the phageome and …

[HTML][HTML] Liquid biopsy for infectious diseases: a focus on microbial cell-free DNA sequencing

D Han, R Li, J Shi, P Tan, R Zhang, J Li - Theranostics, 2020 - ncbi.nlm.nih.gov
Metagenomic next-generation sequencing (mNGS) of microbial cell-free DNA (mcfDNA
sequencing) is becoming an attractive diagnostic modality for infectious diseases, allowing …

[HTML][HTML] A comparison of blood pathogen detection among droplet digital PCR, metagenomic next-generation sequencing, and blood culture in critically ill patients …

B Hu, Y Tao, Z Shao, Y Zheng, R Zhang… - Frontiers in …, 2021 - frontiersin.org
Metagenomic next-generation sequencing (mNGS) and droplet digital PCR (ddPCR) have
recently demonstrated a great potential for pathogen detection. However, few studies have …

Metagenomic next-generation sequencing of plasma for diagnosis of COVID-19-associated pulmonary aspergillosis

M Hoenigl, M Egger, J Price, R Krause… - Journal of Clinical …, 2023 - Am Soc Microbiol
Timely diagnosis remains an unmet need in non-neutropenic patients at risk for
aspergillosis, including those with COVID-19-associated pulmonary aspergillosis (CAPA) …

Serial quantitation of plasma microbial cell-free DNA before and after diagnosis of pulmonary invasive mold infections after hematopoietic cell transplant

MR Heldman, AA Ahmed, W Liu, A Vo… - The Journal of …, 2024 - academic.oup.com
Background Plasma microbial cell-free DNA sequencing (mcfDNA-Seq) is a noninvasive
test for microbial diagnosis of invasive mold infection (IMI). The utility of mcfDNA-Seq for …