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Status |
Public on Dec 31, 2009 |
Title |
Liver sinusoidal endothelial cells, infected with MCMV, sample 6 |
Sample type |
RNA |
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|
Source name |
Liver sinusoidal endothelial cells
|
Organism |
Mus musculus |
Characteristics |
cell type: Liver sinusoidal endothelial cells strain: C57BL/6 gender: female age: 6-8 weeks
|
Treatment protocol |
LSEC were infected with MCMV-GFP with a MOI of 0.1 for 6h
|
Extracted molecule |
total RNA |
Extraction protocol |
LSEC were lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
|
Label |
Biotin
|
Label protocol |
Biotin labeled cRNA preparation was performed using the Ambion Illumina® TotalPrep™ RNA amplification kit (Ambion Europe, Huntington, Cambridgeshire, UK).
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|
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Hybridization protocol |
cRNA (1.5 µg) was hybridized to Illumina Mouse WG-6 BeadChip microarrays.
|
Scan protocol |
Illumina Mouse WG-6 BeadChip microarrays were scanned on Illumina BeadStation 500x.
|
Description |
Sufficient amount of high quality RNA was isolated and LSEC transcriptome was assessed using Mouse WG-6 BeadChip microarray.
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Data processing |
BeadStudio raw data were normalized using R (quantile normalization implemented in the affy package). Further statistical and bioinformatic analyses were performed using R language and packages from the Bioconductor project (affy, multtest, hcluster).
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Submission date |
Feb 11, 2009 |
Last update date |
Feb 12, 2009 |
Contact name |
Michaela Kern |
E-mail(s) |
Michaela.kern@ukb.uni-bonn.de
|
Organization name |
University of Bonn
|
Street address |
Sigmund-Freud-Str. 25
|
City |
Bonn |
ZIP/Postal code |
53105 |
Country |
Germany |
|
|
Platform ID |
GPL4234 |
Series (1) |
GSE14674 |
Virally infected LSEC trigger CD8 T cell immunity |
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