|
Status |
Public on Mar 21, 2008 |
Title |
Female wild type/Female HNF4alpha knockout comparison/Replicate #1 |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
frozen adult female mouse liver tissue prepared using Trizol
|
Organism |
Mus musculus |
Characteristics |
Strain: 129/SV x C57B6 x FVB Genotype: wild type Sex: female Tissue: liver Age: 7 weeks
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extraction
|
Label |
Alexa 555
|
Label protocol |
amino-allyl reverse transcription
|
|
|
Channel 2 |
Source name |
frozen adult female mouse liver tissue prepared using Trizol
|
Organism |
Mus musculus |
Characteristics |
Strain: 129/SV x C57B6 x FVB Genotype: HNF4alpha knockout Sex: female Tissue: liver Age: 7 weeks
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extraction
|
Label |
Alexa 647
|
Label protocol |
amino-allyl reverse transcription
|
|
|
|
Hybridization protocol |
Hybridization was performed using 0.825 µg of Alexa 555-labeled aRNA and 0.825 µg of Alexa 647-labeled aRNA. Agilent’s SureHyb hybridization chambers were used in a hybridization oven and rotation rack for 17 hr at 65° C at 10 rpm. After hybridization, the slides were washed per Agilent’s SSPE wash protocol.
|
Scan protocol |
Slides were scanned using an Agilent dual laser scanner using the extended dynamic range option, which utilizes two 5 m scans of each slide at settings of PMT 100% and PMT 10% to increase signal dynamic range and avoid feature saturation. TIFF images were analyzed using Agilent’s feature extraction software (version 9.5.3, protocol GE2-v5_91_0806).
|
Description |
The genetic expression profile for a single female wild type liver pool and a single female HNF4alpha knockout liver pool is given as a normalized ratio. The purpose of this comparison is to study the impact of HNF4alpha deletion on female liver gene expression.
|
Data processing |
Rosetta Resolver pipeline
|
|
|
Submission date |
Feb 05, 2008 |
Last update date |
Mar 21, 2008 |
Contact name |
David J. Waxman |
E-mail(s) |
djw@bu.edu
|
Organization name |
Boston University
|
Department |
Department of Biology and Bioinformatics Program
|
Street address |
5 Cummington Mall
|
City |
Boston |
State/province |
MA |
ZIP/Postal code |
02215 |
Country |
USA |
|
|
Platform ID |
GPL4134 |
Series (1) |
GSE10390 |
Sex-dependent and HNF4alpha-dependent Mouse Liver Gene Expression |
|