|
| Status |
Public on Jan 07, 2009 |
| Title |
lung_control_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
lung tissue, control
|
| Organism |
Rattus norvegicus |
| Characteristics |
Sprague-Dawley rat
Age: 14-day-old
|
| Treatment protocol |
Diabetes was induced in female rat with intraperitoneal injection of streptozotocin (35mg/kg) before the onset of pregnancy.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from lung homogenate by using the Trizol reagent (Invitrogen, Carlsbad, CA, USA) followed by purification using RNeasy mini kit and RNase-free DNase I (Qiagen, Hilden, Germany).
|
| Label |
Cy3
|
| Label protocol |
Hybridization was detected by using 1µg/ml Cy3-Streptavidin (GE Healthcare, Little Chalfont, Buckinghamshire, UK).
|
| |
|
| Hybridization protocol |
750 ng of cRNA was hybridized to the Illumina Sentrix RatRef-12 BeadChip microarray (Illumina Inc., San Diego, USA) representing ~22 000 genes, following a standard protocol of Illumina Whole Genome Gene Expression with IntelliHyb, revision A.
|
| Scan protocol |
Array was scanned with BeadArray Reader from Illumina. Expression values were generated with Bead Studio 2.3.1 software (Illumina).
|
| Description |
Replicate 3 of 4.
|
| Data processing |
Microarray data analysis was performed using R statistical analysis software (http://www.project.org) and the related Bioconductor module (http://www.bioconductor.org). The data was preprocessed using the quantile normalization method and various measures were inspected during the quality control step. Correlation between the normalized expression values of biological replicates were >0.9897 for the control group and >0.983 for the study group. The statistical analysis was carried out using Limma package.
|
| |
|
| Submission date |
Jan 06, 2009 |
| Last update date |
Jan 06, 2009 |
| Contact name |
Anna Koskinen |
| E-mail(s) |
[email protected]
|
| Organization name |
Research centre of Applied and Preventive Cardiovascular Medicine (CAPC)
|
| Department |
University of Turku
|
| Street address |
Kiinamllynkatu 10
|
| City |
Turku |
| ZIP/Postal code |
FIN-20520 |
| Country |
Finland |
| |
|
| Platform ID |
GPL8031 |
| Series (1) |
| GSE14307 |
Gene analysis of the neonatal rat lung exposed to STZ-induced maternal diabetes |
|
