|
| Status |
Public on Jan 11, 2010 |
| Title |
alb189_treated_female (MoGene-1_0-st) |
| Sample type |
RNA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
gender: Female
age: 140 days
mutation: B6.alb/cre,Pdss2loxP/loxP
treatment: Probucol (1% wt/vol)
treatment start age: 44 days
tissue: liver
|
| Treatment protocol |
Two B6.alb/cre,Pdss2loxP/loxP mice (one male and one female) were fed standard mouse chow supplemented with probucol (1% wt/vol) from weaning beginning on day of life 44. Untreated controls consisted of two B6.alb/cre,Pdss2loxP/loxP mice (one male and one female) fed standard mouse chow.
|
| Growth protocol |
Liver-conditional knockout mice for Pdss2, a coenzyme Q biosynthetic pathway gene, were generated as previously described [9]. Briefly, the mutation was targeted to hepatocytes by utilizing mice homozygous for the floxed gene (B6.Pdss2loxP/loxP) crossed with partners that expressed cre under the control of an albumin/cre promoter (B6.Cg-Tg(alb-cre)21 Mgn/J (alb/cre)) obtained from The Jackson Lab. Animals were sacrificed and liver specimens flash frozen for RNA extraction at 140 to 169 days old. All procedures were approved by the Institutional Animal Care and Use Committee of both the University of Pennsylvania and The Children’s Hospital of Philadelphia.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from each mouse was isolated by standard Trizol extraction, purified, and combined into a single aliquot from 100 mg flash-frozen liver specimens collected at the time of sacrifice, as previously described for GSE10904.
|
| Label |
biotin
|
| Label protocol |
1 ug of total RNA was processed using a ribosomal RNA reduction step (Invitrogen RiboMinus) and labeled according to the Affymetrix Whole Transcriptome Sense Kit.
|
| |
|
| Hybridization protocol |
10 ug of fragmented cRNA was hybridized to each array for 17 hours at 45 degrees Centigrade with rotation at 60 RPM according to the Affymetrix standard protocol for Gene arrays.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G.
|
| Description |
n/a
|
| Data processing |
All probes were remapped to current version of mouse coding sequence and regrouped into probe sets corresponding to NCBI genes, using AffyProbeMiner web tool. Resultant library CDF files were imported into R to processCEL files with RMA method implemented in the affy package.
|
| |
|
| Submission date |
Nov 03, 2009 |
| Last update date |
Jan 11, 2010 |
| Contact name |
Marni J Falk |
| E-mail(s) |
[email protected]
|
| Phone |
215-590-4564
|
| Organization name |
CHOP
|
| Department |
Pediatrics/ Human Genetics
|
| Lab |
ARC 1002c
|
| Street address |
3615 Civic Center Blvd
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL9525 |
| Series (1) |
| GSE18677 |
Cross-platform expression microarray performance in a mouse model of mitochondrial disease therapy |
|
