title: Pathogen chip for respiratory tract infections.
abstract: Determining the viral etiology of respiratory tract infections (RTI) has been limited for the most part to specific primer PCR-based methods due to their increased sensitivity and specificity compared to other methods, such as tissue culture. However, specific primer approaches have limited the ability to fully understand the diversity of infecting pathogens. A pathogen chip system (PathChip), developed at the Genome Institute of Singapore (GIS), using a random-tagged PCR coupled to a chip with over 170,000 probes, has the potential to recognize all known human viral pathogens. We tested 290 nasal wash specimens from Filipino children <2 years of age with respiratory tract infections using culture and 3 PCR methods-EraGen, Luminex, and the GIS PathChip. The PathChip had good diagnostic accuracy, ranging from 85.9% (95% confidence interval [CI], 81.3 to 89.7%) for rhinovirus/enteroviruses to 98.6% (95% CI, 96.5 to 99.6%) for PIV 2, compared to the other methods and additionally identified a number of viruses not detected by these methods.
authors.affiliation: University of Colorado School of Medicine, Aurora, Colorado, USA. eric.simoes@ucdenver.edu
authors.forename: Eric A F
authors.initials: EA
authors.lastname: Simões
authors.forename: Champa
authors.initials: C
authors.lastname: Patel
authors.forename: Wing-Kin
authors.initials: WK
authors.lastname: Sung
authors.forename: Charlie W H
authors.initials: CW
authors.lastname: Lee
authors.forename: Kuan Hon
authors.initials: KH
authors.lastname: Loh
authors.forename: Marilla
authors.initials: M
authors.lastname: Lucero
authors.forename: Hanna
authors.initials: H
authors.lastname: Nohynek
authors.forename: Geraldine
authors.initials: G
authors.lastname: Nai
authors.forename: Pei Ling
authors.initials: PL
authors.lastname: Thien
authors.forename: Chee Wee
authors.initials: CW
authors.lastname: Koh
authors.forename: Yang Sun
authors.initials: YS
authors.lastname: Chan
authors.forename: Jianmin
authors.initials: J
authors.lastname: Ma
authors.forename: Sebastian
authors.initials: S
authors.lastname: Maurer-Stroh
authors.forename: Phyllis
authors.initials: P
authors.lastname: Carosone-Link
authors.forename: Martin L
authors.initials: ML
authors.lastname: Hibberd
authors.forename: Christopher W
authors.initials: CW
authors.lastname: Wong
mesh_terms: D002675:Child, Preschool; D005260:Female; D006801:Humans; D007223:Infant; D007231:Infant, Newborn; D008297:Male; D025202:Molecular Diagnostic Techniques / Q000379:methods*; D009297:Nasal Mucosa / Q000821:virology; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D010679:Philippines; D012141:Respiratory Tract Infections / Q000175:diagnosis*; D014773:Virology / Q000379:methods*; D014777:Virus Diseases / Q000175:diagnosis*; D014780:Viruses / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*