|
| Status |
Public on Dec 31, 2009 |
| Title |
Liver sinusoidal endothelial cells, sample 3 |
| Sample type |
RNA |
| |
|
| 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
|
| 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).
|
| |
|
| 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.
|
| 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).
|
| |
|
| 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 |
|
