title: Assessing next-generation sequencing and 4 bioinformatics tools for detection of Enterovirus D68 and other respiratory viruses in clinical samples.
abstract: We used 4 different bioinformatics algorithms to evaluate the application of a metagenomic shot-gun sequencing method in detection of Enterovirus D68 and other respiratory viruses in clinical specimens. Our data supported that next-generation sequencing, combined with improved bioinformatics tools, is practically feasible and useful for clinical diagnosis of viral infections.
authors.affiliation: Department of Pathology, New York Medical College, Valhalla, NY, USA. Electronic address: weihua_huang@nymc.edu.
authors.forename: Weihua
authors.initials: W
authors.lastname: Huang
authors.affiliation: Department of Pathology, New York Medical College, Valhalla, NY, USA; Department of Pathology and Clinical Laboratories, Westchester Medical Center, Valhalla, NY, USA.
authors.forename: Guiqing
authors.initials: G
authors.lastname: Wang
authors.affiliation: Philips Research North America, Briarcliff Manor, NY, USA.
authors.forename: Henry
authors.initials: H
authors.lastname: Lin
authors.affiliation: Department of Pathology and Clinical Laboratories, Westchester Medical Center, Valhalla, NY, USA.
authors.forename: Jian
authors.initials: J
authors.lastname: Zhuge
authors.affiliation: Division of Pediatric Infectious Disease, New York Medical College, Valhalla, NY, USA.
authors.forename: Sheila M
authors.initials: SM
authors.lastname: Nolan
authors.affiliation: Department of Pathology and Clinical Laboratories, Westchester Medical Center, Valhalla, NY, USA.
authors.forename: Eric
authors.initials: E
authors.lastname: Vail
authors.affiliation: Philips Research North America, Briarcliff Manor, NY, USA.
authors.forename: Nevenka
authors.initials: N
authors.lastname: Dimitrova
authors.affiliation: Department of Pathology, New York Medical College, Valhalla, NY, USA; Department of Pathology and Clinical Laboratories, Westchester Medical Center, Valhalla, NY, USA.
authors.forename: John T
authors.initials: JT
authors.lastname: Fallon
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030016:Enterovirus D, Human / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D004769:Enterovirus Infections / Q000175:diagnosis* / Q000821:virology*; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods; D006801:Humans; D009305:Nasopharynx / Q000821:virology; D060888:Real-Time Polymerase Chain Reaction; D015203:Reproducibility of Results; D012141:Respiratory Tract Infections / Q000175:diagnosis* / Q000821:virology*; D012680:Sensitivity and Specificity
keywords: Bioinformatics; Diagnostic sensitivity; Diagnostic specificity; Enterovirus D68; Next-generation sequencing