Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

45 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling by array of human lymphocyte cells lines generated with EBNA3-knockout Epstein-Barr Viruses

ABSTRACT: Epstein-Barr virus (EBV) is able to drive the transformation of B-cells, resulting in the generation of lymphocyte cell lines (LCLs) in vitro. EBV nuclear proteins EBNA3A and EBNA3C are necessary for efficient transformation, while EBNA3B is dispensable. We describe a transcriptome analysis of LCLs generated with EBNA3B knockout (3BKO) EBV (made in the B95-8 BAC generated by Delecluse and Hammerschmidt) and comparable LCLs made with the parental B95-8 BAC (wtBAC).
Peripheral blood cells from three donors were infected with two 3BKO virus preparations, and two wtBAC virus preps. LCLs were grown out, and RNA extracted after 3-6 weeks (depending how long the outgrowth took). Total RNA was ribominus treated and then labelled and hybridised to Affymetrix human exon 1.0ST microarrays.

ORGANISM(S): Homo sapiens

SUBMITTER: Rob White

PROVIDER: E-MEXP-2768 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling by array of human LB31 cells infected with a series of EBNA3-knockout Epstein-Barr Viruses

Project description:Epstein-Barr virus (EBV) is able to drive the transformation of B-cells, resulting in the generation of lymphocyte cell lines (LCLs) in vitro. EBV nuclear proteins EBNA3A and EBNA3C are necessary for efficient transformation, while EBNA3B is dispensable. We describe a transcriptome analysis of BL31 cells infected with a series of EBNA3-knockout EBVs, including one deleted for all three EBNA3 genes. BL31 cells were infected with a variety of EBV mutants and their revertants, generated in the EBV-BAC system developed by Henri-Jacques Delecluse and Wolfgang Hammerschmidt. These are mutants of the EBV EBNA3 genes - specifically individual knockouts of EBNA3A, EBNA3B and EBNA3C (in this case the first exon of EBNA3C was retained) and a deletion of the total EBNA3 locus (ie all three EBNA3 genes missing).<br>RNA from cultures of cell lines carrying these mutant EBVs (3-4 independent cell lines for each mutant; 2-3 for each revertant, plus three each for uninfected BL31 and parental B95-8 BAC-infected lines) was isolated using RNeasy midi kits (qiagen) and then ribominus-treated and then labelled and hybridised to Affymetrix Human Exon 1.0ST arrays. Array analysis was performed using the MMBGX algorithm developed by Ernest Turro and Alex Lewin. <br>

2010-10-30 | E-MEXP-2767 | biostudies-arrayexpress

Gene expression profiles of epithelial cells infected with microRNA-negative and -positive Epstein-Barr viruses

Project description:The Epstein-Barr virus (EBV) encodes its own microRNAs (miRNAs); however, their biological roles remain elusive. The commonly used EBV B95-8 strain lacks a 12 kb genomic region, known as BamHI A Rightward Transcripts (BART) locus, which encodes a number of viral miRNAs (BART miRNAs). These miRNAs are expressed abundantly in EBV-positive epithelial malignancies, suggesting that the 12 kb region somehow contributes to EBV-mediated epithelial carcinogenesis. Bacterial artificial chromosome (BAC) technology was used to generate an EBV B95-8 strain in which the 12 kb region was fully restored at its native locus (BART-restored virus). HEK293 and AdAH cells infected with either the parental BART-deleted virus or the BART-restored virus were established. The gene expression profiles of these cells were examined to identify cellular target genes of BART miRNAs.

2015-02-05 | GSE58723 | GEO

Gene expression profiles of epithelial cells infected with microRNA-negative and -positive Epstein-Barr viruses

2015-02-05 | E-GEOD-58723 | biostudies-arrayexpress