|
| Status |
Public on May 10, 2015 |
| Title |
V3bissal-R7coc_Low-accumbens |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Accumbens nucleus from mouse submitted to conditioned place preference
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Accumbens nucleus
Sex: male
treatment: received saline solution at D2 D3 D4 of conditioned place preference protocol
background: C57BL6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Kit Picopure (Arcturus)
|
| Label |
Cy5-CTP Agilent
|
| Label protocol |
Briefly, 50-ng aliquots of total RNA were labeled using the Agilent Linear Amplification/Labeling kit (Agilent Technologies).
|
| |
|
| Channel 2 |
| Source name |
Accumbens nucleus from mouse submitted to conditioned place preference
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Accumbens nucleus
Sex: male
treatment: received cocaine (15 mg/kg) at D2 D3 D4 of conditioned place preference protocol
background: C57BL6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Kit Picopure (Arcturus)
|
| Label |
Cy3-CTP Agilent
|
| Label protocol |
Briefly, 50-ng aliquots of total RNA were labeled using the Agilent Linear Amplification/Labeling kit (Agilent Technologies).
|
| |
|
| |
| Hybridization protocol |
After checking the labeling efficiency and the product integrity, 750 ng Cy3- and 750 ng Cy5-labeled targets were mixed and incubated on an Agilent microarray slide for 17 hours at 65°C, in a rotating oven, using an Agilent in situ hybridization kit. The slides were washed and then any traces of water were removed by centrifugation at 800 rpm for 1 min.
|
| Scan protocol |
Slides were scanned using an Agilent G6525 Microarray Scanner at 5-μm resolution. The photo multiplier tube (PMT) levels of the two channels at 635 nm (for Cy5) and 532 nm (for Cy3) were balanced to limit the number of saturated pixels for generating gray scale 16-bit TIFF image files
|
| Data processing |
The data were extracted using Feature Extraction software (Agilent).The pre-processing of the data and its quality assessment were done using the MANGO (MicroArray Normalization tool of GODMAP) tools suit (version 1.0, CNRS BioInfome Team [http://bioinfome.cgm.cnrs-gif.fr/]), an R script that allows integrated analysis of two-color microarrays. The background level was calculated using morphological operators (a short closing followed by a large opening) and subtracted. Raw data were normalized using the print-tip lowess method, i.e. local regression normalization within an artificial print-tip block.
|
| |
|
| Submission date |
Mar 29, 2011 |
| Last update date |
May 10, 2015 |
| Contact name |
Gilles Maussion |
| Organization name |
INSERM U675
|
| Street address |
16 rue Henri Huchard
|
| City |
PARIS |
| ZIP/Postal code |
75018 |
| Country |
France |
| |
|
| Platform ID |
GPL2872 |
| Series (2) |
| GSE28529 |
Transcriptome of accumbens nuclei from mice having low scores of cocaine-dependent conditioned place preference |
| GSE28828 |
Transcriptomes of subthalamic nuclei, globus pallidus, and accumbens nuclei from mice with low and high scores of cocaine-dependent conditioned place preference |
|
