title: Alignment free characterization of the influenza-A hemagglutinin genes by the ISSCOR method.
abstract: Analyses and visualizations by the ISSCOR method of the influenza virus hemagglutinin genes of three different A-subtypes revealed some rather striking temporal (for A/H3N3), and spatial relationships (for A/H5N1) between groups of individual gene subsets. The application to the A/H1N1 set revealed also relationships between the seasonal H1, and the swine-like novel 2009 H1v variants in a quick and unambiguous manner. Based on these examples we consider the application of the ISSCOR method for analysis of large sets of homologous genes as a worthwhile addition to a toolbox of genomics-it allows a rapid diagnostics of trends, and possibly can even aid an early warning of newly emerging epidemiological threats.
authors.affiliation: Interdisciplinary Center for Mathematical and Computational Modeling, Warsaw University, Warsaw, Poland. janr@icm.edu.pl
authors.forename: Jan P
authors.initials: JP
authors.lastname: Radomski
authors.forename: Piotr P
authors.initials: PP
authors.lastname: Slonimski
mesh_terms: D000818:Animals; D000956:Antigens, Viral / Q000235:genetics; D003062:Codon / Q000235:genetics; D003198:Computer Simulation; D004812:Epidemiologic Methods; D005814:Genes, Viral / Q000235:genetics*; D023281:Genomics / Q000379:methods*; D006389:Hemagglutinins, Viral / Q000235:genetics*; D006801:Humans; D053118:Influenza A Virus, H1N1 Subtype / Q000235:genetics; D053122:Influenza A Virus, H3N2 Subtype / Q000235:genetics; D053124:Influenza A Virus, H5N1 Subtype / Q000235:genetics; D009980:Influenza A virus / Q000235:genetics*; D016018:Least-Squares Analysis; D009010:Monte Carlo Method; D005810:Multigene Family; D025341:Principal Component Analysis; D012621:Seasons; D013269:Stochastic Processes; D013552:Swine
chemical_list: D000956:Antigens, Viral; D003062:Codon; D006389:Hemagglutinins, Viral