About: IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes

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About: IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes Goto Sponge NotDistinct Permalink

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	IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
Creator	Chu, Ken Huntemann, Marcel Llabrés, Mercè Paez-Espino, David Palaniappan, Krishna Ratner, Anna Roux, Simon Chen, I.-Min Eloe-Fadrosh, Emiley Ivanova, Natalia Kyrpides, Nikos Pons, Joan Reddy, T
topic	covid:da9c2a65da6499124bab5ad5754dddf47fe0baaf#this
Source	PMC
abstract	The Integrated Microbial Genome/Virus (IMG/VR) system v.2.0 (https://img.jgi.doe.gov/vr/) is the largest publicly available data management and analysis platform dedicated to viral genomics. Since the last report published in the 2016, NAR Database Issue, the data has tripled in size and currently contains genomes of 8389 cultivated reference viruses, 12 498 previously published curated prophages derived from cultivated microbial isolates, and 735 112 viral genomic fragments computationally predicted from assembled shotgun metagenomes. Nearly 60% of the viral genomes and genome fragments are clustered into 110 384 viral Operational Taxonomic Units (vOTUs) with two or more members. To improve data quality and predictions of host specificity, IMG/VR v.2.0 now separates prokaryotic and eukaryotic viruses, utilizes known prophage sequences to improve taxonomic assignments, and provides viral genome quality scores based on the estimated genome completeness. New features also include enhanced BLAST search capabilities for external queries. Finally, geographic map visualization to locate user-selected viral genomes or genome fragments has been implemented and download options have been extended. All of these features make IMG/VR v.2.0 a key resource for the study of viruses.
has issue date	2019-01-08(xsd:dateTime)
bibo:doi	10.1093/nar/gky1127
bibo:pmid	30407573
has license	cc-by
sha1sum (hex)	da9c2a65da6499124bab5ad5754dddf47fe0baaf
schema:url	https://doi.org/10.1093/nar/gky1127
resource representing a document's title	IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
has PubMed Central identifier	PMC6323928
has PubMed identifier	30407573
schema:publication	Nucleic Acids Res
resource representing a document's body	covid:da9c2a65da6499124bab5ad5754dddf47fe0baaf#body_text
is http://vocab.deri.ie/void#inDataset of	proxy:http/ns.inria.fr/covid19/da9c2a65da6499124bab5ad5754dddf47fe0baaf
is schema:about of	named entity 'DATA' named entity 'TWO OR MORE' named entity 'QUALITY' named entity 'VIRUSES' named entity 'DATABASE' named entity 'VISUALIZATION' named entity 'MAP' named entity 'RESOURCE' named entity 'CURRENTLY' named entity 'SCORES' named entity 'EXTERNAL' named entity '112' named entity 'CLUSTERED' named entity 'SELECTED' named entity 'KNOWN' named entity 'DOE' named entity 'CURATED' named entity 'DATA QUALITY' named entity 'SEARCH' named entity 'STUDY' named entity '60%' named entity 'completeness' named entity 'Since' named entity 'Operational Taxonomic Units' named entity 'IMG' named entity 'INTEGRATED' named entity 'VIRAL' named entity '110' named entity 'SEQUENCES' named entity 'USER' named entity 'VIRAL GENOMICS' named entity 'PLATFORM' named entity 'PROPHAGES' named entity 'GOV' named entity 'INTEGRATED' named entity 'PREVIOUSLY' named entity 'ISOLATES' named entity 'CONTAINS' named entity 'NEW' named entity 'KEY' named entity 'DATA MANAGEMENT' named entity 'PROPHAGE' named entity 'DEDICATED' named entity 'FRAGMENTS' named entity 'COMPLETENESS' named entity 'HAVE' named entity 'PROKARYOTIC' named entity 'MAKE' named entity 'ENVIRONMENTAL' named entity 'VIRAL' named entity 'ANALYSIS SYSTEM' named entity 'GENOMES' named entity 'DATA MANAGEMENT' named entity 'BASED' named entity 'HOST SPECIFICITY' named entity 'GENOMIC' named entity 'ENHANCED' named entity 'PREDICTIONS' named entity 'SIZE' named entity 'GEOGRAPHIC' named entity 'IMPLEMENTED' named entity 'EUKARYOTIC' named entity 'MICROBIAL' named entity 'AVAILABLE' named entity 'PUBLISHED' named entity 'NEARLY' named entity 'PROVIDES'

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