Enhanced Virus Detection and Metagenomic Sequencing in Patients with Meningitis and Encephalitis

Clinical Impact of Metagenomic Next-Generation Sequencing of Plasma Cell-Free DNA for the Diagnosis of Infectious Diseases: A Multicenter Retrospective Cohort Study

(2020) Catherine A Hogan et al.   CLINICAL INFECTIOUS DISEASES

Analytical and clinical validation of a microbial cell-free DNA sequencing test for infectious disease

(2019) Timothy A. Blauwkamp et al.   Nature Microbiology

Clinical metagenomics

(2019) Charles Y. Chiu et al.   NATURE REVIEWS GENETICS

Capturing sequence diversity in metagenomes with comprehensive and scalable probe design

(2019) Hayden C. Metsky et al.   NATURE BIOTECHNOLOGY

Global, regional, and national burden of neurological disorders, 1990–2016: a systematic analysis for the Global Burden of Disease Study 2016

(2019) Valery L Feigin et al.   LANCET NEUROLOGY

Contaminating viral sequences in high-throughput sequencing viromics: a linkage study of 700 sequencing libraries

(2019) Maria Asplund et al.   CLINICAL MICROBIOLOGY AND INFECTION

Laboratory validation of a clinical metagenomic sequencing assay for pathogen detection in cerebrospinal fluid

(2019) Steve Miller et al.   GENOME RESEARCH

Nanopore metagenomics enables rapid clinical diagnosis of bacterial lower respiratory infection

(2019) Themoula Charalampous et al.   NATURE BIOTECHNOLOGY

Clinical Metagenomic Sequencing for Diagnosis of Meningitis and Encephalitis

(2019) Michael R. Wilson et al.   NEW ENGLAND JOURNAL OF MEDICINE

Central nervous system (CNS) enterovirus infections: A single center retrospective study on clinical features, diagnostic studies, and outcome

(2019) Sarah D. Torres et al.   JOURNAL OF NEUROVIROLOGY

Encephalitis and aseptic meningitis: short-term and long-term outcome, quality of life and neuropsychological functioning

(2019) Else Quist-Paulsen et al.   Scientific Reports

The challenge of diagnostic metagenomics

(2018) Alexander L. Greninger   EXPERT REVIEW OF MOLECULAR DIAGNOSTICS

Next-generation sequencing of the cerebrospinal fluid in the diagnosis of neurobrucellosis

(2018) Siyuan Fan et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Development and Optimization of Metagenomic Next-Generation Sequencing Methods for Cerebral Spinal Fluid Diagnostics

(2018) Patricia J Simner et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Clinical and biological features of enteroviral meningitis among adults and children and factors associated with severity and length of stay

(2018) Mo Vareil et al.   JOURNAL OF CLINICAL VIROLOGY

Encephalitis diagnosis using metagenomics: application of next generation sequencing for undiagnosed cases

(2018) Julianne R. Brown et al.   JOURNAL OF INFECTION

Incidence, aetiology, and sequelae of viral meningitis in UK adults: a multicentre prospective observational cohort study

(2018) Fiona McGill et al.   LANCET INFECTIOUS DISEASES

Vital Signs: Trends in Reported Vectorborne Disease Cases — United States and Territories, 2004–2016

(2018) Ronald Rosenberg et al.   MMWR-MORBIDITY AND MORTALITY WEEKLY REPORT

Clinical Metagenomic Next-Generation Sequencing for Pathogen Detection

(2018) Wei Gu et al.   Annual Review of Pathology-Mechanisms of Disease

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

Acute human herpes virus 7 (HHV-7) encephalitis in an immunocompetent adult patient: a case report and review of literature

(2017) Nicoletta Riva et al.   INFECTION

Limbic Encephalitis Associated with Human Herpesvirus-7 (HHV-7) in an Immunocompetent Adult: The First Reported Case in Japan

(2017) Yoko Aburakawa et al.   INTERNAL MEDICINE

Case 34-2017

(2017) Jennifer L. Lyons et al.   NEW ENGLAND JOURNAL OF MEDICINE

Encephalitis associated with human herpesvirus-7 infection in an immunocompetent adult

(2017) Mónica Parra et al.   Virology Journal

Hepatitis E Virus–Associated Meningoencephalitis in a Lung Transplant Recipient Diagnosed by Clinical Metagenomic Sequencing

(2017) Jamie A. Murkey et al.   Open Forum Infectious Diseases

Neurobrucellosis: Unexpected Answer From Metagenomic Next-Generation Sequencing

(2017) Kanokporn Mongkolrattanothai et al.   Journal of the Pediatric Infectious Diseases Society

Acute West Nile Virus Meningoencephalitis Diagnosed Via Metagenomic Deep Sequencing of Cerebrospinal Fluid in a Renal Transplant Patient

(2016) M. R. Wilson et al.   AMERICAN JOURNAL OF TRANSPLANTATION

Suspected encephalitis with Candida tropicalis and Fusarium detected by unbiased RNA sequencing

(2016) M. Christopeit et al.   ANNALS OF HEMATOLOGY

Depletion of Human DNA in Spiked Clinical Specimens for Improvement of Sensitivity of Pathogen Detection by Next-Generation Sequencing

(2016) Mohammad R. Hasan et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Comparison of microbial DNA enrichment tools for metagenomic whole genome sequencing

(2016) Matthew Thoendel et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Redefining the invertebrate RNA virosphere

(2016) Mang Shi et al.   NATURE

Fast and sensitive taxonomic classification for metagenomics with Kaiju

(2016) Peter Menzel et al.   Nature Communications

DiagnosingBalamuthia mandrillarisEncephalitis With Metagenomic Deep Sequencing

(2015) Michael R. Wilson et al.   ANNALS OF NEUROLOGY

Epidemiology of meningitis with a negative CSF Gram stain: under-utilization of available diagnostic tests

(2015) L. NESHER et al.   EPIDEMIOLOGY AND INFECTION

West Nile Virus Central Nervous System Infection in Patients Treated With Rituximab: Implications for Diagnosis and Prognosis, With a Review of Literature

(2015) S. Morjaria et al.   Open Forum Infectious Diseases

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Burden of encephalitis-associated hospitalizations in the United States, 1998-2010

(2014) N. M. Vora et al.   NEUROLOGY

Actionable Diagnosis of Neuroleptospirosis by Next-Generation Sequencing

(2014) Michael R. Wilson et al.   NEW ENGLAND JOURNAL OF MEDICINE

Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak

(2014) S. K. Gire et al.   SCIENCE

Increasing Incidence of Ehrlichia chaffeensis and Anaplasma phagocytophilum in the United States, 2000–2007

(2011) F. Scott Dahlgren et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Impact of rituximab-associated B-cell defects on West Nile virus meningoencephalitis in solid organ transplant recipients

(2009) Marilyn E. Levi et al.   CLINICAL TRANSPLANTATION

Database indexing for production MegaBLAST searches

(2008) Aleksandr Morgulis et al.   BIOINFORMATICS