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Sample GSM369991 Query DataSets for GSM369991
Status Public on Dec 31, 2009
Title Liver sinusoidal endothelial cells, sample 4
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

Data table header descriptions
ID_REF
VALUE quantile normalized signal

Data table
ID_REF VALUE
102450270 88.82
104200035 117.92
100730138 117.97
102320427 75.47
102630735 84.31
100450435 97.68
101230594 73.92
100780541 94.64
104200184 96.03
105360286 82.81
103060411 99.69
100630193 73.65
105270286 70.02
101690685 80.34
100060180 105.74
107100563 88.10
100450451 82.95
100610092 74.97
104810452 2426.22
6840019 615.05

Total number of rows: 45988

Table truncated, full table size 691 Kbytes.




Supplementary file Size Download File type/resource
GSM369991.txt.gz 305.7 Kb (ftp)(http) TXT
Processed data included within Sample table

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