Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome Analysis of KSHV virions produced from BCBL1 and BAC36 in 293L cells

ABSTRACT: The objective of this study was to identify the viral transcripts packaged into the virion particles produced from BCBL1 cells as well as virions from 293L cells containing BAC36 BACs

ORGANISM(S): Human gammaherpesvirus 8

PROVIDER: GSE62343 | GEO | 2014/10/16

SECONDARY ACCESSION(S): PRJNA263876

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcriptome Analysis of KSHV virions produced from BCBL1 and BAC36 in 293L cells

Project description:The objective of this study was to identify the viral transcripts packaged into the virion particles produced from BCBL1 cells as well as virions from 293L cells containing BAC36 BACs RNA from virions were extracted and analyzed by RNA sequencing

2014-10-16 | E-GEOD-62343 | biostudies-arrayexpress

Transcriptome Analysis of KSHV during de novo primary infection of endothelial (TIVE) cells

Project description:The objective of this study was to identify the viral transcripts packaged into the virion particles and the transcription profiles of the viral genome during early infection, till the virus establishes latent infection in endothelial (TIVE) cells

2014-10-16 | GSE62342 | GEO

Transcriptome Analysis of KSHV during de novo primary infection of human B cells (PBMCs)

2014-10-16 | GSE62341 | GEO

Transcriptome Analysis of KSHV during de novo primary infection of endothelial (TIVE) cells

2014-10-16 | E-GEOD-62342 | biostudies-arrayexpress

Transcriptome Analysis of KSHV during de novo primary infection of human B cells (PBMCs)

2014-10-16 | E-GEOD-62341 | biostudies-arrayexpress

Transcriptome Analysis of KSHV during de novo primary infection of human CD14+ cells

2014-10-16 | GSE62340 | GEO

Transcriptome Analysis of KSHV during de novo primary infection of human CD14+ cells

2014-10-16 | E-GEOD-62340 | biostudies-arrayexpress

Profiling selective packaging of host RNA and viral RNA modification in the SARS-CoV-2 virion

Project description:Viruses package host RNAs in their virions which are associated with a range of functions in the viral life cycle. Previous transcriptomic profiling on host RNA packaging were mostly focused on retroviruses. Which host RNAs are packaged in other viruses at the transcriptome level has not been thoroughly examined. Here we apply both small RNA and large RNA sequencing of SARS-CoV-2 virions from six individual isolates in Vero cell cultures to profile packaging of host RNAs in a coronavirus and to explore SARS-CoV-2 genomic RNA modifications. We find selective packaging of specific tRNAs, tRNA fragments and signal recognition particle RNA into SARS-CoV-2 virions. Virions from all individual clones package the same set of host RNAs, suggesting a common mechanism of selective packaging. We estimate that a SARS-CoV-2 virion contains up to 1 SRP RNA and 4 tRNA molecules. We identify tRNA modification differences between the virion-packaged tRNAs and those in the uninfected host cells. Furthermore, we find subgenomic viral RNAs in the virions, and uncharacterized candidate modifications in the SARS-CoV-2 genomic RNA. Our results reveal an under-explored aspect of viral-host interaction that may be explored for viral therapeutics.

2022-03-06 | GSE182883 | GEO

Reovirus low-density particles package viral and cellular RNA

Project description:Packaging of segmented, double-stranded RNA viral genomes requires coordination of multiple viral proteins and RNA segments. For mammalian orthoreovirus (reovirus), evidence suggests either all ten or zero viral RNA segments are simultaneously packaged in a highly coordinated process hypothesized to exclude host RNA. Accordingly, reovirus generates genome-containing virions and “genomeless” top component particles. However, despite ostensibly lacking the genome, top component particles maintain a low level of infectivity. Whether reovirus particles can package host RNA is unknown. To gain insight into reovirus packaging potential and mechanisms, we employed next-generation RNA-sequencing to define the viral and host RNA content of purified reovirus virions and top component particles. Reovirus top component particles contained double-stranded viral RNA segments in similar proportions but at reduced levels compared to virions. Top component particles also were enriched for numerous host RNAs, especially short, non-polyadenylated transcripts, that differed by reovirus strain, independent of the viral polymerase. In contrast, virions were enriched for very few host RNAs. Collectively, these findings indicate that genome packaging into reovirus virions is exquisitely selective, while incorporation of host RNAs into top component particles is more promiscuous or differentially selective and may contribute to or result from inefficient viral RNA packaging.

2021-06-08 | GSE164270 | GEO

A3G and A3F CLIP

Project description:APOBEC3G and APOBEC3F are cell-encoded restriction factors that have evolved to counteract virus infections. When packaged into HIV-1 particles, A3G and A3F impair reverse transcription and induce the hypermutation of viral DNA. We employed a next generation sequencing approach to identify the RNAs that these proteins bind in HIV-1 infected cells and HIV-1 virions. We then analysed the mechanism of packaging of APOBEC3 in detail.

2014-12-17 | E-MTAB-2700 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data