|
| Status |
Public on Apr 01, 2009 |
| Title |
Liver_fresh_Cre(-) rep 3 |
| Sample type |
RNA |
| |
|
| Source name |
Liver, IkkβF/F mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain: Male, adult C57BL6/J
genotype/variation: IkkβF/F
age: 4-6 weeks
tissue: Fresh liver
|
| 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 3
|
| 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 |
|
