|
| Status |
Public on Feb 15, 2014 |
| Title |
sample c_lean rat |
| Sample type |
RNA |
| |
|
| Source name |
lean_pancreatic islets
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Wistar
diet group: standard chow diet
tissue: pancreatic islets
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Immediately after animal sacrification, pancreatic islets were obtained by collagenase digestion.
10ug RNA was extracted from pancreatic islets with Trizol reagent (Invitrogen Life Tecnologies, Paisley, Scotland, UK) according to the manufactures instructions.
|
| Label |
biotin
|
| Label protocol |
cRNA amplification and biotin labeling was synthesized from 2ug total RNA by means of cDNA synthesis (One-Cycle cDNA Synthesis Kit, Affymetrix Inc, Santa Clara, CA) followed by an in vitro transcription reaction in the presence of T7 RNA Polymerase and of biotinylated nucleotide analog/ribonucleotide mix (GeneChip IVT Labeling Kit, Affymetrix Inc, Santa Clara, CA)
|
| |
|
| Hybridization protocol |
Biotin-labeled cRNA was cleanup and quantified and subsequently it was fragmented by metal-induced hydrolysis (GeneChip Sample Cleanup Module, Affymetrix Inc).
Hybridization was performed with GeneChip® Hybridization Wash and Stain Kit (Affymetrix Inc) according to manufactures instructions.
|
| Scan protocol |
GeneChips were scanned using the GeneChip®Scanner 3000 7G (Affymetrix Inc).
|
| Description |
cCtrl30
|
| Data processing |
Raw expression measures were summarized after background correction and normalization steps using the rma methodology in the affy package from the Bioconductor project (R v.2.7.0 . Affy package Bioconductor v.2.0.1).
|
| |
|
| Submission date |
Feb 18, 2013 |
| Last update date |
Feb 15, 2014 |
| Contact name |
Susana Kalko |
| E-mail(s) |
kalko.susana@gmail.com
|
| Organization name |
IDIBAPS
|
| Department |
Bioinformatics Platform
|
| Street address |
c/Rosello 153
|
| City |
Barcelona |
| State/province |
BARCELONA |
| ZIP/Postal code |
08036 |
| Country |
Spain |
| |
|
| Platform ID |
GPL1355 |
| Series (2) |
| GSE44373 |
Gene expression profile in pancreatic islets from control rats fed a standard chow diet and obese rats fed a high-caloric cafeteria diet for 30 days. |
| GSE44374 |
Impact of the peripancreatic adipose tissue on beta-cell adaptation to obesity: an integrated, multi-platform analysis |
|
