About: CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes

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About: CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes
Creator	Yuen, Kwok-Yung Huang, Yi Lau, Susanna Woo, Patrick
Source	Medline; PMC
abstract	The recent SARS epidemic has boosted interest in the discovery of novel human and animal coronaviruses. By July 2007, more than 3000 coronavirus sequence records, including 264 complete genomes, are available in GenBank. The number of coronavirus species with complete genomes available has increased from 9 in 2003 to 25 in 2007, of which six, including coronavirus HKU1, bat SARS coronavirus, group 1 bat coronavirus HKU2, groups 2c and 2d coronaviruses, were sequenced by our laboratory. To overcome the problems we encountered in the existing databases during comparative sequence analysis, we built a comprehensive database, CoVDB (http://covdb.microbiology.hku.hk), of annotated coronavirus genes and genomes. CoVDB provides a convenient platform for rapid and accurate batch sequence retrieval, the cornerstone and bottleneck for comparative gene or genome analysis. Sequences can be directly downloaded from the website in FASTA format. CoVDB also provides detailed annotation of all coronavirus sequences using a standardized nomenclature system, and overcomes the problems of duplicated and identical sequences in other databases. For complete genomes, a single representative sequence for each species is available for comparative analysis such as phylogenetic studies. With the annotated sequences in CoVDB, more specific blast search results can be generated for efficient downstream analysis.
has issue date	2007-10-02(xsd:dateTime)
bibo:doi	10.1093/nar/gkm754
bibo:pmid	17913743
has license	cc-by-nc
sha1sum (hex)	85c04886b69b27eeddd4a72c74e2e1727a80598f
schema:url	https://doi.org/10.1093/nar/gkm754
resource representing a document's title	CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes
has PubMed Central identifier	PMC2238867
has PubMed identifier	17913743
schema:publication	Nucleic Acids Res
resource representing a document's body	covid:85c04886b69b27eeddd4a72c74e2e1727a80598f#body_text
is schema:about of	named entity 'COMPARATIVE ANALYSIS' named entity 'DATABASES' named entity 'BLAST' named entity 'COMPARATIVE SEQUENCE ANALYSIS' named entity 'ANNOTATED' named entity 'MICROBIOLOGY' named entity 'USING' named entity 'GENOME ANALYSIS' named entity 'INCLUDING' named entity 'PROBLEMS' named entity 'COMPARATIVE ANALYSIS' named entity 'SEARCH RESULTS' named entity 'RECORDS' named entity 'ANALYSIS' named entity 'SEQUENCE' named entity 'GENOMES' named entity 'COMPLETE' named entity 'OVERCOME' named entity 'PLATFORM' named entity 'EFFICIENT' named entity 'DIRECTLY' named entity 'GENERATED' named entity 'DETAILED' named entity 'AVAILABLE' named entity 'CORONAVIRUS' named entity 'DUPLICATED' named entity 'BAT SARS CORONAVIRUS' named entity 'GENOMES' named entity 'RECENT' named entity 'DATABASE' named entity 'COMPREHENSIVE' named entity 'SEQUENCE RETRIEVAL' named entity 'WEBSITE' named entity 'CORONAVIRUS' named entity 'SEQUENCES' named entity 'COMPREHENSIVE' named entity 'CONVENIENT' named entity 'SARS' named entity 'ACCURATE' named entity 'INTEREST' named entity 'IDENTICAL' named entity 'CORONAVIRUSES' named entity 'NUMBER OF' named entity 'DOWNSTREAM' named entity 'SYSTEM' named entity 'GENBANK' named entity 'CORONAVIRUS HKU1' named entity 'EPIDEMIC' named entity 'STUDIES' named entity 'LABORATORY' named entity 'DATABASE' named entity 'SPECIFIC' named entity 'NOVEL' named entity 'GENE OR GENOME' named entity 'GENES' named entity 'ANIMAL' named entity 'RAPID' named entity 'GROUP 1' named entity 'MORE THAN' named entity 'REPRESENTATIVE' named entity 'PROVIDES' named entity 'GENES' named entity 'DISCOVERY' named entity 'HUMAN' named entity 'ANNOTATION' named entity 'SPECIES' named entity 'SINGLE' named entity 'JULY' named entity 'INCREASED' named entity 'FASTA FORMAT' named entity 'BATCH' named entity '3000' named entity 'OUR' named entity 'BAT CORONAVIRUS HKU2' named entity 'NOMENCLATURE' named entity 'GROUPS' covid:arg/85c04886b69b27eeddd4a72c74e2e1727a80598f named entity 'phylogenetic studies'

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