About: IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses

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About: IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses 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	IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
Creator	Chen, Feng Webster, John Chu, Ken Huntemann, Marcel Paez-Espino, David Palaniappan, Krishna Ratner, Anna Cavicchioli, Ricardo Denef, Vincent Huang, Jinghua Liu, Wen-Tso Nielsen, Torben Pillay, Manoj Szeto, Ernest Tsesmetzis, Nicolas Caffrey, Sean Campbell, Barbara Chen, I.-Min Hallam, Steve Handley, Kim Ivanova, Natalia Kyrpides, Nikos Markowitz, Victor Pavlopoulos, Georgios Pope, Phillip Reddy, T Rivers, Adam Salekdeh, Ghasem Setubal, Joao Streit, Wolfgang Sullivan, Matthew Mcmahon, Katherine
topic	covid:1c3abd60f3deefb350c36d0f51ba2ae27eff56b5#this
Source	PMC
abstract	Viruses represent the most abundant life forms on the planet. Recent experimental and computational improvements have led to a dramatic increase in the number of viral genome sequences identified primarily from metagenomic samples. As a result of the expanding catalog of metagenomic viral sequences, there exists a need for a comprehensive computational platform integrating all these sequences with associated metadata and analytical tools. Here we present IMG/VR (https://img.jgi.doe.gov/vr/), the largest publicly available database of 3908 isolate reference DNA viruses with 264 413 computationally identified viral contigs from >6000 ecologically diverse metagenomic samples. Approximately half of the viral contigs are grouped into genetically distinct quasi-species clusters. Microbial hosts are predicted for 20 000 viral sequences, revealing nine microbial phyla previously unreported to be infected by viruses. Viral sequences can be queried using a variety of associated metadata, including habitat type and geographic location of the samples, or taxonomic classification according to hallmark viral genes. IMG/VR has a user-friendly interface that allows users to interrogate all integrated data and interact by comparing with external sequences, thus serving as an essential resource in the viral genomics community.
has issue date	2017-01-04(xsd:dateTime)
bibo:doi	10.1093/nar/gkw1030
bibo:pmid	27799466
has license	cc-by-nc
sha1sum (hex)	1c3abd60f3deefb350c36d0f51ba2ae27eff56b5
schema:url	https://doi.org/10.1093/nar/gkw1030
resource representing a document's title	IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
has PubMed Central identifier	PMC5210529
has PubMed identifier	27799466
schema:publication	Nucleic Acids Res
resource representing a document's body	covid:1c3abd60f3deefb350c36d0f51ba2ae27eff56b5#body_text
is http://vocab.deri.ie/void#inDataset of	proxy:http/ns.inria.fr/covid19/1c3abd60f3deefb350c36d0f51ba2ae27eff56b5
is schema:about of	named entity 'experimental' named entity 'essential' named entity 'revealing' named entity 'DATABASE' named entity 'CULTURED' named entity 'RETROVIRUSES' named entity 'RECENT' named entity 'GOV' named entity 'LIFE' named entity 'PHYLA' named entity 'PREDICTED' named entity 'HAVE' named entity 'FORMS' named entity 'INTERFACE' named entity 'CLUSTERS' named entity 'USING' named entity 'INTERACT' named entity 'INTEGRATED' named entity 'USER' named entity 'EXTERNAL' named entity 'INCLUDING' named entity 'PLANET' named entity 'DOE' named entity 'DISTINCT' named entity 'THESE' named entity 'CONTIGS' named entity 'VIRAL GENOMICS' named entity 'ESSENTIAL' named entity 'COMPUTATIONAL' named entity 'IDENTIFIED' named entity 'HABITAT' named entity 'COMPARING' named entity 'AVAILABLE' named entity 'VIRAL' named entity 'DATA' named entity 'DIVERSE' named entity 'IMG' named entity 'DNA VIRUSES' named entity 'REPRESENT' named entity 'LED' named entity 'TAXONOMIC CLASSIFICATION' named entity 'EXPERIMENTAL' named entity 'EXPANDING' named entity 'DATABASE' named entity 'ASSOCIATED' named entity 'VIRUSES' named entity 'REFERENCE' named entity 'COMMUNITY'

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