Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Transcription profiling of mouse fibroblasts infected with murine hepatitis virus using two array platforms to compare the potential for interference from viral RNA

ABSTRACT: Infection of cells with murine hepatitis virus strain A59 (MHV-A59) results in massive amounts of viral RNA within infected cells. When applying transcriptional profiling by means of microarray analysis, this could potentially cause problems since high amounts of viral RNA could in theory interfere with the analysis. Since coronavirus RNAs are polyadenylated, the viral RNAs are also amplified by oligo(dT) primers (a standard procedure when processing RNA samples for array hybridization). In this experiment we compared two different array platforms for the potential interference of viral RNA, using MHV-A59 infection of LR7 (murine fibroblasts) as a model.

INSTRUMENT(S): G2565AA DNA microarray scanner [Agilent]

ORGANISM(S): Mus musculus

SUBMITTER: Matthijs Raaben 

PROVIDER: E-MEXP-1373 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Json Xml
altmetric image

Publications

Improved microarray gene expression profiling of virus-infected cells after removal of viral RNA.

Raaben Matthijs M   Whitley Penn P   Bouwmeester Diane D   Setterquist Robert A RA   Rottier Peter J M PJ   de Haan Cornelis A M CA  

BMC genomics 20080514

<h4>Background</h4>Sensitivity and accuracy are key points when using microarrays to detect alterations in gene expression under different conditions. Critical to the acquisition of reliable results is the preparation of the RNA. In the field of virology, when analyzing the host cell's reaction to infection, the often high representation of viral RNA (vRNA) within total RNA preparations from infected cells is likely to interfere with microarray analysis. Yet, this effect has not been investigate  ...[more]

Similar Datasets

no omics defined Transcription profiling of mouse fibroblast-like cells infected with mouse hepatitis virus
2007-11-13 | E-MEXP-895 | biostudies-arrayexpress
Transcriptomics Transcription profiling of mouse brain tissue from three strains infected with mouse hepatitis virus (MHV) for 2 or 5 days
2009-10-01 | E-MEXP-2081 | biostudies-arrayexpress
Transcriptomics TAS002
2013-08-07 | E-TABM-1104 | biostudies-arrayexpress
Transcriptomics FJ001
2011-01-12 | E-TABM-1209 | biostudies-arrayexpress
Transcriptomics Transcription profiling of human breast carcinomas negative for estrogen, progesterone and HER2/nue receptors
2007-10-09 | E-NCMF-2 | biostudies-arrayexpress
Transcriptomics Transcription profiling of 165 human primary breast carcinomas and 15 recurred tumors to investigate expression profiles in relation to the risk of developing local recurrence after breast conserving therapy
2009-04-01 | E-NCMF-24 | biostudies-arrayexpress
Transcriptomics Analysis of Streptococcus agalactiae response to dltA mutation the role of DltR
2014-05-25 | E-MEXP-3317 | biostudies-arrayexpress
Transcriptomics Transcription profiling by array of abx1 deletion or over expression in Streptococcus agalactiae and comparision with the effect of CovS and CovR deletion
2013-02-26 | E-MEXP-3703 | biostudies-arrayexpress
Transcriptomics Transcription profiling of matching human primary head and neck squamous cell carcinomas and cervical lymph node metastases.
2006-10-23 | E-TABM-114 | biostudies-arrayexpress
Transcriptomics Transcription profiling of human CD34+CD38- and CD34+CD38+ cells from patients with acute myelogenous leukemia (AML)
2008-08-01 | E-NCMF-11 | biostudies-arrayexpress