|
| Status |
Public on Sep 27, 2013 |
| Title |
156401_BAT_WT_RT |
| Sample type |
RNA |
| |
|
| Source name |
Brown Adipose Tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype/variation: wild type
gender: male
age: 3 months
placed at: room temperature for 5hrs
tissue: brown adipose tissue
|
| Growth protocol |
Mice were allowed free access to water and placed at 4C or RT for 5 hours.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA from each sample was prepared using manufacturer recommended protocols and the Qiagen RNAEasy columns. 250ng of RNA was used to prepare each sample using the Ambion WT Expression Kit for Gene ST 1.0 Array.
|
| Label |
biotin
|
| Label protocol |
Fragmenting and labeling was completed with the Affymetrix Gene Chip WT Terminal labeling for Gene ST 1.0 Array.
|
| |
|
| Hybridization protocol |
5.5ug of cDNA was hybridized to Mouse Gene ST 1.0 Array for 16 hours. Washing and Staining was completed on the Affymetrix Fluidic Station 450.
|
| Scan protocol |
The stained GeneChips were scanned with a GeneChip® Scanner 3000+ 7G(Affymetrix) a 570 nm.
|
| Description |
156401_BAT_WT_RT
|
| Data processing |
Raw data were normalized using the Single Channel Array Normalization (Piccolo et al. 2012, PMID: 22959562) method, which is implemented as a Bioconductor package (http://www.bioconductor.org/packages/release/bioc/html/SCAN.UPC.html). As part of the normalization process, a custom chip-definition file (ver. 17.1.0) from the BrainArray resource was used to map genes based on updated genome mappings and excludes inaccurate or wrongly annotated probes. The number of 35,557 microarray probe sets was mapped to 21,187 genes.
|
| |
|
| Submission date |
Sep 26, 2013 |
| Last update date |
Nov 25, 2013 |
| Contact name |
Claudio Villanueva |
| E-mail(s) |
cvillanueva@ucla.edu
|
| Organization name |
UCLA
|
| Department |
Integrative Biology and Physiology
|
| Lab |
Villanueva
|
| Street address |
610 Charles E. Young Drive East Box 957239
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL17777 |
| Series (1) |
| GSE51223 |
Adipose subtype-selective recruitment of TLE3 in thermogenic gene programs |
|
