Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide transcript structure resolution reveals novel features of gammaherpesvirus transcription and yields an extensively revised murine gammaherpesvirus 68 genome annotation

ABSTRACT: Genome-wide transcript structure resolution reveals novel features of gammaherpesvirus transcription and yields an extensively revised murine gammaherpesvirus 68 genome annotation

PROVIDER: PRJNA482829 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7591320.fastq.gz	Fastqsanger.gz
	SRR7591541_subreads.fastq.gz	Fastqsanger.gz
	SRR7591542_subreads.fastq.gz	Fastqsanger.gz
	SRR7591543_subreads.fastq.gz	Fastqsanger.gz
	SRR7591544_subreads.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 26

Similar Datasets

Genome-wide transcript structure resolution reveals novel features of gammaherpesvirus transcription and yields an extensively revised murine gammaherpesvirus 68 genome annotation

Project description:This SuperSeries is composed of the SubSeries listed below.

2019-06-25 | GSE117651 | GEO

Genome-wide transcript structure resolution in murine gammaherpesvirus 68: Iso-Seq

Project description:Pacific Biosciences Iso-Seq was used in conjunction with Illumina RNA-Seq and deepCAGE to globally resolve transcript structures in lytic murine gammaherpesvirus 68.

2019-06-25 | GSE117650 | GEO

Genome-wide transcript structure resolution in murine gammaherpesvirus 68: 3T12 deepCAGE

Project description:deepCAGE was used in conjunction with Pacific Biosciences Iso-Seq and Illumina RNA-Seq to globally resolve transcript structures in lytic murine gammaherpesvirus 68.

2019-06-25 | GSE117644 | GEO

Genome-wide transcript structure resolution in murine gammaherpesvirus 68: HE 2.1 deepCAGE

Project description:deepCAGE was used in conjunction with Pacific Biosciences Iso-Seq and Illumina RNA-Seq to globally resolve transcript structures in lytic murine gammaherpesvirus 68.

2019-06-25 | GSE131197 | GEO

Genome-wide transcript structure resolution in murine gammaherpesvirus 68: Illumina RNA-Seq

Project description:Strand-specific Illumina RNA-Seq was used in conjunction with Pacific Biosciences Iso-Seq and deepCAGE to globally resolve transcript structures in lytic murine gammaherpesvirus 68.

2019-06-25 | GSE117645 | GEO

Genome-wide transcript structure resolution in murine gammaherpesvirus 68: 3T12 BGI RNA-Seq

Project description:Strand-specific RNA-Seq was used in conjunction with Pacific Biosciences Iso-Seq and deepCAGE to globally resolve transcript structures in lytic murine gammaherpesvirus 68.

2019-06-25 | GSE131198 | GEO

Genome-wide transcript structure resolution in murine gammaherpesvirus 68: HE 2.1 BGI RNA-Seq

Project description:Strand-specific RNA-Seq was used in conjunction with Pacific Biosciences Iso-Seq and deepCAGE to globally resolve transcript structures in lytic murine gammaherpesvirus 68.

2019-06-25 | GSE131199 | GEO

Latent gammaherpesvirus 68 infection induces distinct transcriptional changes in different organs

Project description:Previous studies identified a role for latent herpesvirus infection in cross-protection to infection and exacerbation of chronic inflammatory diseases. Here, we compared the gene expression signature from livers, spleens and brains of mice infected with wild-type gammaherpesvirus 68 (MHV68), a mutant virus defective in the establishment of latency (ORF73.stop) or mockulum. We identified over 600 genes differentially expressed in organs of mice latently infected with MHV68 and found distinct sets of genes linked to different pathways were altered in spleen compared to liver. Several of the most differentially expressed latency-specific genes (e.g. IFNγ, Cxcl9, Ccl5) are associated with known latency-specific phenotypes. RNA was extracted from livers, spleens and brains of 7-9 week old male C57Bl/6 mice infected with gammaherpesvirus 68 (MHV68), a virus defective in establishment of latency (ORF73.stop) or mockulum. RNA from 3-4 mice per treatment was pooled and analyzed by M430 2.0 Affymetrix Gene Chip. Three biologic replicates were analyzed for all conditions, except mock livers, for which four biologic replicates were analyzed.

2013-10-18 | E-GEOD-51365 | biostudies-arrayexpress

Tiled Array Experiment of Murine Gammaherpesvirus 68 Transcripts In Newly Infected Fibroblasts

Project description:Murine NIH3T3 fibroblasts were infected with MHV68 and RNA expression was examined over an 18 hour timecourse experiment. Study includes 8 samples isolated at 0, 2, 4, 6, 8, 10, 12, and 18 hours after infection of NIH3T3 fibroblasts with murine gammaherpesvirus 68 at a multiplicity of infection of 10.0.

2012-02-16 | E-GEOD-35863 | biostudies-arrayexpress

Identification and analysis of expression of novel microRNAs of murine gammaherpesvirus 68

Project description:Murine gammaherpesvirus 68 (MHV-68) is closely related to Epstein-Barr virus (EBV) and KaposiM-bM-^@M-^Ys sarcoma-associated herpesvirus (KSHV) and provides a small animal model to study the pathogenesis of gammaherpesvirus (M-NM-3HV) infections. To completely explore the potential of the MHV-68 system for the investigation of gHV miRNAs, it would be desirable to know the number and expression patterns of all miRNAs encoded by MHV-68. By using small RNA deep sequencing, we systematically investigated the MHV-68 miRNA expression profiles in both lytically and persistently infected cells. In addition to the known nine MHV-68 miRNAs, we identified six novel MHV-68 miRNA genes and analyzed the expression levels of all MHV-68 miRNAs. Furthermore, we also characterized the cellular miRNA expression signatures in MHV-68 infected versus non-infected NIH3T3 fibroblasts and in TPA-treated versus non-treated S11 cells. We found that mmu-mir-15b and mmu-mir-16 are highly upregulated upon MHV-68 infection of NIH3T3 cells, indicating a potential role of cellular miRNAs during MHV-68 infection. Our data will aid to fully explore the functions of gHV miRNAs. A mouse fibroblast cell line infected with/without MHV-68 and a MHV-68 infected mouse B lymphoma cell line treated with/without TPA (4 samples in total) were examined.

2010-07-15 | E-GEOD-22938 | 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