title: Comparison of microarray-predicted closest genomes to sequencing for poliovirus vaccine strain similarity and influenza A phylogeny.
abstract: We evaluate sequence data from the PathChip high-density hybridization array for epidemiological interpretation of detected pathogens. For influenza A, we derive similar relative outbreak clustering in phylogenetic trees from PathChip-derived compared to classical Sanger-derived sequences. For a positive polio detection, recent infection could be excluded based on vaccine strain similarity.
authors.affiliation: Bioinformatics Institute (BII), A*STAR, 30 Biopolis St, #07-01 Matrix, 138671, Singapore; School of Biological Sciences, Nanyang Technological University (NTU), 60 Nanyang Drive, 637551, Singapore. Electronic address: sebastianms@bii.a-star.edu.sg.
authors.forename: Sebastian
authors.initials: S
authors.lastname: Maurer-Stroh
authors.affiliation: Genome Institute Singapore (GIS), A*STAR, 60 Biopolis St, #02-01 Genome, 138672, Singapore.
authors.forename: Charlie W H
authors.initials: CW
authors.lastname: Lee
authors.affiliation: University of Colorado School of Medicine, 13001 E 17th Place, Aurora, CO 80045, USA.
authors.forename: Champa
authors.initials: C
authors.lastname: Patel
authors.affiliation: Medical Department, Research Institute for Tropical Medicine, Alabang, Muntinlupa City, Philippines.
authors.forename: Marilla
authors.initials: M
authors.lastname: Lucero
authors.affiliation: KTL National Public Health Institute, Helsinki, Finland.
authors.forename: Hanna
authors.initials: H
authors.lastname: Nohynek
authors.affiliation: Genome Institute Singapore (GIS), A*STAR, 60 Biopolis St, #02-01 Genome, 138672, Singapore.
authors.forename: Wing-Kin
authors.initials: WK
authors.lastname: Sung
authors.affiliation: Microbiology Department, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia.
authors.forename: Chrysanti
authors.initials: C
authors.lastname: Murad
authors.affiliation: Bioinformatics Institute (BII), A*STAR, 30 Biopolis St, #07-01 Matrix, 138671, Singapore.
authors.forename: Jianmin
authors.initials: J
authors.lastname: Ma
authors.affiliation: Genome Institute Singapore (GIS), A*STAR, 60 Biopolis St, #02-01 Genome, 138672, Singapore.
authors.forename: Martin L
authors.initials: ML
authors.lastname: Hibberd
authors.affiliation: Genome Institute Singapore (GIS), A*STAR, 60 Biopolis St, #02-01 Genome, 138672, Singapore.
authors.forename: Christopher W
authors.initials: CW
authors.lastname: Wong
authors.affiliation: University of Colorado School of Medicine, 13001 E 17th Place, Aurora, CO 80045, USA; Center for Global Health, Colorado School of Public Health, and Children's Hospital Colorado, 13001 E 17th Place, Aurora, CO 80045, USA.
authors.forename: Eric A F
authors.initials: EA
authors.lastname: Simões
mesh_terms: D002675:Child, Preschool; D004196:Disease Outbreaks; D016679:Genome, Viral; D006801:Humans; D007214:Indonesia / Q000453:epidemiology; D007223:Infant; D009980:Influenza A virus / Q000145:classification* / Q000235:genetics*; D007251:Influenza, Human / Q000453:epidemiology / Q000821:virology; D020411:Oligonucleotide Array Sequence Analysis; D010679:Philippines / Q000453:epidemiology; D010802:Phylogeny; D011051:Poliomyelitis / Q000453:epidemiology / Q000821:virology; D017955:Poliovirus / Q000145:classification / Q000235:genetics; D023321:Poliovirus Vaccines / Q000145:classification* / Q000235:genetics*
chemical_list: D023321:Poliovirus Vaccines
keywords: Diagnostics; Epidemiology; Hybridization array; Infectious disease; Influenza; PCR; Poliovirus