About: VIRTUS: a pipeline for comprehensive virus analysis from conventional RNA-seq data

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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	VIRTUS: a pipeline for comprehensive virus analysis from conventional RNA-seq data
Creator	Sakaguchi, Shimon Hara, Atsushi Ohkura, Naganari Yasumizu, Yoshiaki
Source	BioRxiv
abstract	The possibility that RNA transcripts from clinical samples contain plenty of virus RNAs has not been pursued actively so far. We here developed a new tool for analyzing virus-transcribed mRNAs, not virus copy numbers, in the data of conventional and single-cell RNA-sequencing of human cells. Our pipeline, named VIRTUS (VIRal Transcript Usage Sensor), was able to detect 763 viruses including herpesviruses, retroviruses, and even SARS-CoV-2 (COVID-19), and quantify their transcripts in the sequence data. This tool thus enabled simultaneously detecting infected cells, the composition of multiple viruses within the cell, and the endogenous host gene expression profile of the cell. This bioinformatics method would be instrumental in addressing the possible effects of covertly infecting viruses on certain diseases and developing new treatments to target such viruses. Availability and implementation VIRTUS is implemented using Common Workflow Language and Docker under a CC-NC license. VIRTUS is freely available at https://github.com/yyoshiaki/VIRTUS. Supplementary information Supplementary data are available at Bioinformatics online.
has issue date	2020-06-09(xsd:dateTime)
bibo:doi	10.1101/2020.05.08.085308
has license	biorxiv
sha1sum (hex)	02e0f1d2899187c3b0b9b9de45c5097c880a0c76
schema:url	https://doi.org/10.1101/2020.05.08.085308
resource representing a document's title	VIRTUS: a pipeline for comprehensive virus analysis from conventional RNA-seq data
schema:publication	bioRxiv
resource representing a document's body	covid:02e0f1d2899187c3b0b9b9de45c5097c880a0c76#body_text
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