High‐throughput metagenomics for identification of pathogens in the clinical settings

N Li, Q Cai, Q Miao, Z Song, Y Fang, B Hu - Small methods, 2021 - Wiley Online Library
The application of sequencing technology is shifting from research to clinical laboratories
owing to rapid technological developments and substantially reduced costs. However …

Metagenomic next generation sequencing for the diagnosis of tuberculosis meningitis: A systematic review and meta-analysis

G Yu, W Zhao, Y Shen, P Zhu, H Zheng - PloS one, 2020 - journals.plos.org
Background Tuberculous meningitis (TBM) is a severe form of extrapulmonary tuberculosis
and its early diagnosis is very difficult leading to present with severe disability or die. The …

The human “contaminome”: bacterial, viral, and computational contamination in whole genome sequences from 1000 families

B Chrisman, C He, JY Jung, N Stockham, K Paskov… - Scientific Reports, 2022 - nature.com
The unmapped readspace of whole genome sequencing data tends to be large but is often
ignored. We posit that it contains valuable signals of both human infection and …

Nanopore metagenomic sequencing for detection and characterization of SARS-CoV-2 in clinical samples

NPG Gauthier, C Nelson, MB Bonsall, K Locher… - PLoS …, 2021 - journals.plos.org
Objectives The COVID-19 pandemic has underscored the need for rapid novel diagnostic
strategies. Metagenomic Next-Generation Sequencing (mNGS) may allow for the detection …

Metagenomic next-generation sequencing of cell-free and whole-cell DNA in diagnosing central nervous system infections

L Yu, Y Zhang, J Zhou, Y Zhang, X Qi, K Bai… - Frontiers in Cellular …, 2022 - frontiersin.org
Background Central nervous system (CNS) infections pose a fatal risk to patients. However,
the limited sample volumes of cerebrospinal fluid (CSF) and low detection efficiency …

Human papillomavirus detection by whole-genome next-generation sequencing: importance of validation and quality assurance procedures

LS Arroyo Mühr, D Guerendiain, K Cuschieri… - Viruses, 2021 - mdpi.com
Next-generation sequencing (NGS) yields powerful opportunities for studying human
papillomavirus (HPV) genomics for applications in epidemiology, public health, and clinical …

Metagenomic next-generation sequencing for the diagnosis of neonatal infectious diseases

L Chen, Y Zhao, J Wei, W Huang, Y Ma… - Microbiology …, 2022 - Am Soc Microbiol
Infectious diseases pose a fatal risk to neonates. Timely and accurate pathogen detection is
crucial for proper clinical diagnosis and therapeutic strategies. Limited sample volumes from …

Comparison of the efficacy of metagenomic next-generation sequencing and Xpert MTB/RIF in the diagnosis of tuberculous meningitis

G Yu, X Wang, P Zhu, Y Shen, W Zhao… - Journal of Microbiological …, 2021 - Elsevier
Metagenomic next-generation sequencing (mNGS) is an emerging sequence-based method
that detects genomic information of pathogenic microorganisms from a wide range of clinical …

Diagnostic performance of metagenomic next-generation sequencing for Pneumocystis jirovecii pneumonia

X Li, Z Li, J Ye, W Ye - BMC Infectious Diseases, 2023 - Springer
Objective Pneumocystis jirovecii pneumonia (PJP) can be a life-threatening opportunistic
infection. We aimed to evaluate the diagnostic accuracy of metagenomic next-generation …

Performance of metagenomic next-generation sequencing for the diagnosis of cryptococcal meningitis in HIV-negative patients

Z Gan, J Liu, Y Wang, L Yang, Z Lou, H Xia… - Frontiers in Cellular …, 2022 - frontiersin.org
Objectives Metagenomic next-generation sequencing (mNGS) has been applied more and
more widely for the diagnosis of infectious diseases, but its performance in the diagnosis of …