About: Genomic Analysis of Influenza A Viruses, including Avian Flu (H5N1) Strains

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Genomic Analysis of Influenza A Viruses, including Avian Flu (H5N1) Strains
Creator	Bae, Se-Eun Ahn, Insung Jeong, Byeong-Jin Jung, Jin Son, Hyeon
source	Medline; PMC
abstract	This study was designed to conduct genomic analysis in two steps, such as the overall relative synonymous codon usage (RSCU) analysis of the five virus species in the orthomyxoviridae family, and more intensive pattern analysis of the four subtypes of influenza A virus (H1N1, H2N2, H3N2, and H5N1) which were isolated from human population. All the subtypes were categorized by their isolated regions, including Asia, Europe, and Africa, and most of the synonymous codon usage patterns were analyzed by correspondence analysis (CA). As a result, influenza A virus showed the lowest synonymous codon usage bias among the virus species of the orthomyxoviridae family, and influenza B and influenza C virus were followed, while suggesting that influenza A virus might have an advantage in transmitting across the species barrier due to their low codon usage bias. The ENC values of the host-specific HA and NA genes represented their different HA and NA types very well, and this reveals that each influenza A virus subtype uses different codon usage patterns as well as the amino acid compositions. In NP, PA and PB2 genes, most of the virus subtypes showed similar RSCU patterns except for H5N1 and H3N2 (A/HK/1774/1999) subtypes which were suspected to be transmitted across the species barrier, from avian and porcine species to human beings, respectively. This distinguishable synonymous codon usage patterns in non-human origin viruses might be useful in determining the origin of influenza A viruses in genomic levels as well as the serological tests. In this study, all the process, including extracting sequences from GenBank flat file and calculating codon usage values, was conducted by Java codes, and these bioinformatics-related methods may be useful in predicting the evolutionary patterns of pandemic viruses.
has issue date	2006-07-21(xsd:dateTime)
bibo:doi	10.1007/s10654-006-9031-z
bibo:pmid	16858618
has license	no-cc
sha1sum (hex)	194412ed698eaea5c13e0cf9bc7a0b34d2855cc3
schema:url	https://doi.org/10.1007/s10654-006-9031-z
resource representing a document's title	Genomic Analysis of Influenza A Viruses, including Avian Flu (H5N1) Strains
has PubMed Central identifier	PMC7088104
has PubMed identifier	16858618
schema:publication	Eur J Epidemiol
resource representing a document's body	covid:194412ed698eaea5c13e0cf9bc7a0b34d2855cc3#body_text
is schema:about of	named entity 'usage' named entity 'steps' named entity 'origin' named entity 'suspected' named entity 'conduct' named entity 'ANALYSIS' named entity 'REVEALS' named entity 'HOST' named entity 'USEFUL' named entity 'SEROLOGICAL TESTS' named entity 'FAMILY' named entity 'VALUES' named entity 'HUMAN POPULATION' named entity 'ORIGIN' named entity 'FOLLOWED' named entity 'SUBTYPE' named entity 'SPECIFIC' named entity 'VIRUS' named entity 'EXTRACTING' named entity 'LOWEST' named entity 'INFLUENZA A' named entity 'FLAT' named entity 'RELATED' named entity 'MOST OF' named entity 'GENBANK' named entity 'ADVANTAGE' named entity 'PROCESS' named entity 'SIMILAR' named entity 'CALCULATING' named entity 'VIRUSES' named entity 'AFRICA' named entity 'BIOINFORMATICS' named entity 'GENOMIC' named entity 'INFLUENZA A' named entity 'LOW' named entity 'THESE' named entity 'HUMAN' named entity 'PATTERNS' named entity 'MIGHT BE' named entity 'PATTERN' named entity 'SPECIES' named entity 'PORCINE SPECIES' named entity 'VIRUSES' named entity 'STRAINS' named entity 'ACROSS' named entity 'OVERALL' named entity 'USES' named entity '28A' named entity 'REGIONS' named entity 'VERY WELL' named entity 'DUE TO' named entity 'AMINO ACID' named entity 'RESULT' named entity 'CATEGORIZED' named entity 'ORTHOMYXOVIRIDAE' named entity 'METHODS' named entity 'STUDY' named entity 'RELATIVE' named entity 'ENC' named entity 'SUBTYPES' named entity 'SYNONYMOUS CODON' named entity 'PANDEMIC' named entity 'LEVELS' named entity 'GENES' named entity 'ANALYSIS' named entity 'DIFFERENT' named entity 'NON-' named entity 'INFLUENZA A VIRUS' named entity 'TYPES' named entity 'HUMAN ORIGIN' named entity 'FILE' named entity 'EXCEPT FOR' named entity 'ASIA' named entity 'H2N2' named entity 'CONDUCT' named entity 'STEPS' named entity 'SEQUENCES'

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