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Sample GSM388175 Query DataSets for GSM388175
Status Public on Apr 01, 2009
Title Isolated hepatocytes_fresh_Cre(-) rep 1
Sample type RNA
 
Source name Isolated hepatocytes, IkkβF/F mouse
Organism Mus musculus
Characteristics strain: Male, adult C57BL6/J
genotype/variation: IkkβF/F
age: 4-6 weeks
tissue: Isolated hepatocytes
Treatment protocol Liver tissues and freshly isolated hepatocytes were subjected directly to extraction of total RNA (for microarray profiling) and DNA (for genotyping and deletion analyses) as described above in KS Koch et al. BBRC 380: 349-354 (2009).
Growth protocol Liver tissues and freshly isolated hepatocytes were obtained as described in KS Koch et al. BBRC 380: 349-354 (2009)(PMID: 19171122).
Extracted molecule total RNA
Extraction protocol RNA was extracted with guanidine thiocyanate reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed by standard gel electrophoresis and with Agilent 2100 Bioanalyser.
Label Biotin
Label protocol Biotinylated cRNA were prepared with the Ambion Illumina TotalPrep RNA Amplification Kit.
 
Hybridization protocol ILLUMINA WG-6 V2 mouse bead-chips (#BD 201-0202) were used. Hybridization conditions employed Illumina HYB buffer, 18 hours @ 58○C
Scan protocol Illumina BeadArray Reader, PMT setting 100%, 532nm for Cy3.
Description replicate 7
Data processing Standard Illumina BeadStudio processing of images plus multiple loess normalization of all samples
 
Submission date Mar 31, 2009
Last update date Mar 31, 2009
Contact name Dr. Hyam L. Leffert
E-mail(s) HLEFFERT@ucsd.edu
Phone 858-534-2354
Fax 858-822-4184
URL http://pharmacology.ucsd.edu/Research_Faculty/hlleffert.asp
Organization name UCSD School of Medicine
Department Pharmacology
Lab Hepatocyte Growth Control and Stem Cell Laboratory
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093-0636
Country USA
 
Platform ID GPL6887
Series (1)
GSE15476 Comparisons between liver tissues and freshly isolated hepatocytes from IkkβF/F and IkkβDhep (Ikkβ-deleted) mice

Data table header descriptions
ID_REF
VALUE Robust mean bead fluorescent intensity

Data table
ID_REF VALUE
ILMN_2735294 762.4
ILMN_2417611 492.8
ILMN_2545897 70.4
ILMN_2762289 45.8
ILMN_1248788 39.3
ILMN_2707227 10322.8
ILMN_2896528 4144.7
ILMN_2721178 816.3
ILMN_1227723 373.4
ILMN_2458837 36.4
ILMN_3033922 1140.4
ILMN_3092673 8124.9
ILMN_1230777 4886.5
ILMN_2730714 5521.1
ILMN_1246069 2060
ILMN_1232042 38.4
ILMN_1243193 958.3
ILMN_2524361 43.2
ILMN_1233188 46.2
ILMN_2543688 104.6

Total number of rows: 45281

Table truncated, full table size 801 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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