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Series GSE7647 Query DataSets for GSE7647
Status Public on Apr 28, 2007
Title Comparison of mock treated L929 cells with L929 cells infected with wildtype versus nt3A mutant VRP at 5hpi
Organism Mus musculus
Experiment type Expression profiling by array
Summary This series includes arrays from two separate experiments where the gene expression profile of mock treated L929 cells was compared to that of L929 cells that had been infected with wildtype versus nt3A mutant Venezuelan equine encephalitis virus replicon particles (VRP). Total RNA was isolated from all samples at 5 hour post-infection.
Keywords: virus infection-induced gene expression changes
 
Overall design L929 cells were mock treated or infected at an MOI of 5 with either wildtype or nt3A mutant null-VRP, and total RNA was isolated at 5 hpi using the UltraSpec reagent protocol as described above. The UNC-CH Functional Genomics Core Facility provided Affymetrix sample preparation and hybridization services, hybridizing the samples to Affymetrix Mouse Expression 430A (MOE430A) GeneChip arrays, which include analysis of ~22,600 genes. Affymetrix GeneChip Microarray Suite 5.0 software was used for washing, scanning, and basic analysis, with sample quality assessed by examination of 3’ to 5’ intensity ratios of certain genes. Expression analysis files created by Microarray Suite were imported into GeneSpring 6.2 (Silicon Genetics) for further gene expression analysis and filtering. Two independent array studies were completed, and gene lists were compiled representing only those genes that were up- or downregulated by greater than 2-fold in replicate analyses.
 
Contributor(s) Konopka JL, Johnston RE
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Submission date Apr 26, 2007
Last update date Jan 08, 2019
Contact name Jennifer Konopka
E-mail(s) [email protected]
Organization name University of North Carolina at Chapel Hill
Department Carolina Vaccine Institute
Lab RE Johnston
Street address CB 7292; 9th Floor Burnett-Womack Bldg; Manning Drive
City Chapel Hill
State/province NC
ZIP/Postal code 27599
Country USA
 
Platforms (1)
GPL339 [MOE430A] Affymetrix Mouse Expression 430A Array
Samples (6)
GSM184943 Exp-1 Total RNA from mock L929 cells (5h)
GSM184995 Exp-1 Total RNA from wildtype VRP infected L929 cells (5h)
GSM184998 Exp-1 Total RNA from nt3A mutant VRP infected L929 cells (5h)
Relations
BioProject PRJNA99765

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE7647_RAW.tar 50.1 Mb (http)(custom) TAR (of CEL, CHP, EXP)
Processed data provided as supplementary file

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