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

Liquid biopsy for infectious diseases: sequencing of cell-free plasma to detect pathogen DNA in patients with invasive fungal disease

(2018) David K. Hong et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Cell-Free DNA and Active Rejection in Kidney Allografts

(2017) Roy D. Bloom et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Graft-derived cell-free DNA, a noninvasive early rejection and graft damage marker in liver transplantation: A prospective, observational, multicenter cohort study

(2017) Ekkehard Schütz et al.   PLOS MEDICINE

Optimizing methods and dodging pitfalls in microbiome research

(2017) Dorothy Kim et al.   Microbiome

Implementing an Antibiotic Stewardship Program: Guidelines by the Infectious Diseases Society of America and the Society for Healthcare Epidemiology of America

(2016) Tamar F. Barlam et al.   CLINICAL INFECTIOUS DISEASES

Torquetenovirus: the human virome from bench to bedside

(2016) D. Focosi et al.   CLINICAL MICROBIOLOGY AND INFECTION

Diagnosis ofCapnocytophaga canimorsusSepsis by Whole-Genome Next-Generation Sequencing

(2016) Maria K. Abril et al.   Open Forum Infectious Diseases

Single-stranded DNA library preparation uncovers the origin and diversity of ultrashort cell-free DNA in plasma

(2016) Philip Burnham et al.   Scientific Reports

Diagnosis of Neuroinvasive Astrovirus Infection in an Immunocompromised Adult With Encephalitis by Unbiased Next-Generation Sequencing

(2015) Samia N. Naccache et al.   CLINICAL INFECTIOUS DISEASES

Diagnosis and Treatment ofClostridium difficilein Adults

(2015) Natasha Bagdasarian et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Point-Counterpoint: Large Multiplex PCR Panels Should Be First-Line Tests for Detection of Respiratory and Intestinal Pathogens

(2015) Paul C. Schreckenberger et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Next-Generation Sequencing for Infectious Disease Diagnosis and Management

(2015) Martina I. Lefterova et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

Clinical performance of non-invasive prenatal testing (NIPT) using targeted cell-free DNA analysis in maternal plasma with microarrays or next generation sequencing (NGS) is consistent across multiple controlled clinical studies

(2015) Renee Stokowski et al.   PRENATAL DIAGNOSIS

Noninvasive monitoring of infection and rejection after lung transplantation

(2015) Iwijn De Vlaminck et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the continuing case for reference genome sequencing

(2015) Alexander L. Greninger et al.   Genome Medicine

Analytical and Clinical Validation of a Digital Sequencing Panel for Quantitative, Highly Accurate Evaluation of Cell-Free Circulating Tumor DNA

(2015) Richard B. Lanman et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

(2014) Susannah J Salter et al.   BMC BIOLOGY

Emerging Technologies for Rapid Identification of Bloodstream Pathogens

(2014) A. Kothari et al.   CLINICAL INFECTIOUS DISEASES

Actionable Diagnosis of Neuroleptospirosis by Next-Generation Sequencing

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

Detection of Circulating Tumor DNA in Early- and Late-Stage Human Malignancies

(2014) C. Bettegowda et al.   Science Translational Medicine

Circulating Cell-Free DNA Enables Noninvasive Diagnosis of Heart Transplant Rejection

(2014) I. De Vlaminck et al.   Science Translational Medicine

Surviving Sepsis Campaign: International Guidelines for Management of Severe Sepsis and Septic Shock, 2012

(2013) R. P. Dellinger et al.   INTENSIVE CARE MEDICINE

Clinical utility and cost of non-invasive prenatal testing with cfDNA analysis in high-risk women based on a US population

(2013) Ken Song et al.   Journal of Maternal-Fetal & Neonatal Medicine

The Perils of Pathogen Discovery: Origin of a Novel Parvovirus-Like Hybrid Genome Traced to Nucleic Acid Extraction Spin Columns

(2013) S. N. Naccache et al.   JOURNAL OF VIROLOGY

Analysis of Circulating Tumor DNA to Monitor Metastatic Breast Cancer

(2013) Sarah-Jane Dawson et al.   NEW ENGLAND JOURNAL OF MEDICINE

An alternate pathophysiologic paradigm of sepsis and septic shock

(2013) Anand Kumar   Virulence

Next-generation and whole-genome sequencing in the diagnostic clinical microbiology laboratory

(2012) W. M. Dunne et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Analysis of the unexplored features of rrs (16S rDNA) of the Genus Clostridium

(2011) Vipin Chandra Kalia et al.   BMC GENOMICS

Accurate Genome Relative Abundance Estimation Based on Shotgun Metagenomic Reads

(2011) Li C. Xia et al.   PLoS One

Universal noninvasive detection of solid organ transplant rejection

(2011) T. M. Snyder et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolving Concepts in Sepsis Definitions

(2011) Jean-Louis Vincent et al.   Critical Care Nursing Clinics of North America

Systematic Review and Meta-Analysis of the Efficacy of Appropriate Empiric Antibiotic Therapy for Sepsis

(2010) M. Paul et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The Era of Molecular and Other Non-Culture-Based Methods in Diagnosis of Sepsis

(2010) N. Mancini et al.   CLINICAL MICROBIOLOGY REVIEWS

Guidelines for Preventing Infectious Complications among Hematopoietic Cell Transplantation Recipients: A Global Perspective

(2009) Marcie Tomblyn et al.   BIOLOGY OF BLOOD AND MARROW TRANSPLANTATION

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Initiation of Inappropriate Antimicrobial Therapy Results in a Fivefold Reduction of Survival in Human Septic Shock

(2009) Anand Kumar et al.   CHEST

Infectious Disease Hospitalizations in the United States

(2009) Krista L. Yorita Christensen et al.   CLINICAL INFECTIOUS DISEASES

Noninvasive diagnosis of fetal aneuploidy by shotgun sequencing DNA from maternal blood

(2008) H. C. Fan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA