|
| Status |
Public on Aug 07, 2012 |
| Title |
epid_KO_LF_2 |
| Sample type |
RNA |
| |
|
| Source name |
epididymal adipose tissue
|
| Organism |
Mus musculus |
| Characteristics |
tissue: epididymal adipose tissue
strain: C57BL/6
genotype: CD1d-/-
diet: low fat
|
| Treatment protocol |
Mice were age matched and fed standard chow until age 10-11 weeks, and subsequently fed LFD (10 kcal% fat, Research Diet D12450B) or HFD (45 kcal% fat, Research Diet D12451) for 18-19 weeks.
|
| Growth protocol |
WT C57BL/6J mice (8 weeks; Charles River Laboratories) and CD1d-null mice that had been backcrossed to C57BL/6J for 10-12 generations were bred in our facility.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Epididymal adipose tissue was excised and stored at −80C until analysis. RNA was extracted using Trizol (Invitrogen) and further purified on an RNeasy micro column (Qiagen). RNA samples from 4-6 mice per experimental group were pooled for microarray analysis.
|
| Label |
biotin
|
| Label protocol |
One hundred nanogram of RNA was used for whole transcript cDNA synthesis with the Ambion WT expression kit (Applied Biosystems, Nieuwekerk a/d IJssel, The Netherlands).
|
| |
|
| Hybridization protocol |
One hundred nanogram of RNA per sample was hybridized to an Affymetrix GeneChip Mouse Gene 1.1 ST 24-array plate (Santa Clara, CA) according to manufacturer's instructions.
|
| Scan protocol |
Arrays were scanned on an Affymetrix 3000 7G scanner according to standard protocol.
|
| Data processing |
Expression estimates were calculated using RMA using RMA using R version R-2.15.0 and Bioconductor 2.10
|
| |
|
| Submission date |
Jul 20, 2012 |
| Last update date |
Aug 07, 2012 |
| Contact name |
Guido Hooiveld |
| E-mail(s) |
guido.hooiveld@wur.nl
|
| Organization name |
Wageningen University
|
| Department |
Div. Human Nutrition & Health
|
| Lab |
Nutrition, Metabolism & Genomics Group
|
| Street address |
HELIX, Stippeneng 4
|
| City |
Wageningen |
| ZIP/Postal code |
NL-6708WE |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL11533 |
| Series (1) |
| GSE39534 |
CD1d-restricted NKT cell function prevents insulin resistance in lean mice, and is regulated by adipocytes and is regulated by adipocytes |
|
