About: A Microarray Based Approach for the Identification of Common Foodborne Viruses

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	A Microarray Based Approach for the Identification of Common Foodborne Viruses
Creator	Patel, Isha Kulka, Michael Ayodeji, Mobolanle Mammel, Mark Jackson, Scott Cebula, Thomas Goswami, Biswendu
topic	covid:d1f933dc26c6379a87598a2954792f4943c6c426#this
Source	PMC
abstract	An oligonucleotide array (microarray) incorporating 13,000 elements representing selected strains of hepatitis A virus (HAV), human coxsackieviruses A and B (CVA and CVB), genogroups I and II of Norovirus (NV), and human rotavirus (RV) gene segments 3,4,10, and 11 was designed based on the principle of tiling. Each oligonucleotide was 29 bases long, starting at every 5th base of every sequence, resulting in an overlap of 24 bases in two consecutive oligonucleotides. The applicability of the array for virus identification was examined using PCR amplified products from multiple HAV and CV strains. PCR products labeled with biotin were hybridized to the array, and the biotin was detected using a brief reaction with Cy3-labeled streptavidin, the array subjected to laser scanning, and the hybridization data plotted as fluorescence intensity against each oligonucleotide in the array. The combined signal intensities of all probes representing a particular strain of virus were calculated and plotted against all virus strains identified on a linear representation of the array. The profile of the total signal intensity identified the strain that is most likely represented in the amplified cDNA target. The results obtained with HAV and CV indicated that the hybridization profile thus generated can be used to identify closely related viral strains. This represents a significant improvement over current methods for virus identification using PCR amplification and amplicon sequencing.
has issue date	2009-03-19(xsd:dateTime)
bibo:doi	10.2174/1874357900903010007
bibo:pmid	19718237
has license	cc-by-nc
sha1sum (hex)	d1f933dc26c6379a87598a2954792f4943c6c426
schema:url	https://doi.org/10.2174/1874357900903010007
resource representing a document's title	A Microarray Based Approach for the Identification of Common Foodborne Viruses
has PubMed Central identifier	PMC2707758
has PubMed identifier	19718237
schema:publication	Open Virol J
resource representing a document's body	covid:d1f933dc26c6379a87598a2954792f4943c6c426#body_text
is http://vocab.deri.ie/void#inDataset of	https://covidontheweb.inria.fr:4443/about/id/http/ns.inria.fr/covid19/d1f933dc26c6379a87598a2954792f4943c6c426
is schema:about of	named entity 'VIRUS' named entity 'OVERLAP' named entity 'PCR AMPLIFICATION' named entity 'BIOTIN' named entity 'USING' named entity 'IDENTIFIED' named entity 'PROBES' named entity 'SIGNAL' named entity 'VIRUS IDENTIFICATION' named entity 'OLIGONUCLEOTIDE' named entity 'LABELED' named entity 'GENE' named entity 'VIRAL' named entity 'TARGET' named entity 'RESULTING IN' named entity 'PRINCIPLE' named entity 'LONG' named entity 'FLUORESCENCE INTENSITY' named entity 'OLIGONUCLEOTIDES' named entity 'USED' named entity 'MOST LIKELY' named entity 'SIGNAL INTENSITY' named entity 'OBTAINED' named entity 'MULTIPLE' named entity 'TILING' named entity 'OLIGONUCLEOTIDE ARRAY' named entity 'NOROVIRUS' named entity 'PRODUCTS' named entity 'CALCULATED' named entity 'CDNA' named entity 'BASED' named entity 'SEGMENTS' named entity 'ARRAY' named entity 'CY3' named entity 'REACTION' named entity 'STREPTAVIDIN' named entity 'VIRUSES' named entity 'HYBRIDIZATION' named entity 'BASES' named entity 'ELEMENTS' named entity 'HUMAN' named entity 'AMPLICON SEQUENCING' named entity 'HUMAN ROTAVIRUS' named entity 'EXAMINED' named entity 'INTENSITIES' named entity 'HAV' named entity 'BASED' named entity 'APPROACH' named entity 'FOODBORNE' named entity 'IDENTIFICATION' named entity 'PLOTTED' named entity 'PROFILE' named entity 'TOTAL' named entity 'LASER SCANNING' named entity '2C4' named entity 'PCR' named entity 'GENERATED' named entity 'RESULTS' named entity 'CONSECUTIVE' named entity 'STARTING' named entity 'METHODS' named entity 'SELECTED' named entity 'CVB' named entity 'CURRENT' named entity 'COMMON' named entity 'HEPATITIS A VIRUS' named entity 'SIGNIFICANT IMPROVEMENT' named entity 'STRAINS' named entity 'RELATED' named entity 'STRAIN' named entity 'INDICATED' named entity 'DATA' named entity 'MICROARRAY'

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