|
| Status |
Public on Apr 30, 2024 |
| Title |
CD11brGFP-Stroke-24h-2 |
| Sample type |
RNA |
| |
|
| Source name |
CD11brGFP mice; n=6
|
| Organism |
Mus musculus |
| Characteristics |
genotype: CD11brGFP transgenic
treatment: tMCAO-24 hrs
fraction: Ribosomes-associated mRNAs
|
| Treatment protocol |
CD11brGFP transgenic mice were subjected to tMCAO-24hrs. Each group contains 6 mice with only males. Three biological replicates were used for control and for tMCAO-24hrs.
|
| Growth protocol |
CD11brGFP transgenic mice were used at 2-3 months old.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA was extracted using the Translational Affinity Purification (TRAP) protocol. The purification of the mRNA from the beads was perfomed according to the Absolutely RNA Nanoprep Kit's instructions
|
| Label |
Biotin
|
| Label protocol |
Ribosomes-associated mRNA (100 ng per sample) was labeled using the Affymetrix GeneChip® WT cDNA Synthesis and Amplification Kit protocol as described by the manufacturer (Affymetrix).
|
| |
|
| Hybridization protocol |
Samples were hybridized with Affymetrix Mouse Gene 2.0 ST microarray. The cRNA hybridization cocktail was incubated overnight at 45°C while rotating in a hybridization oven. After 16 h of hybridization, the cocktail was removed and the arrays were washed and stained in an Affymetrix GeneChip fluidics station 450, according to the Affymetrix-recommended protocol.
|
| Scan protocol |
The arrays were scanned using the Affymetrix GCS 3000 7G and the Gene-Chip Command Console Software (AGCC) (Affymetrix, Santa Clara, CA) to produce the probe cell intensity data (CEL). The image data were analyzed by using the Affymetrix Expression Console Software to perform the quality control, the background subtraction and the normalization of probe set intensities with the method of Robust Multiarray Analysis (RMA).
|
| Data processing |
For the visualization of microarray results we used Affymetrix Transcriptome Analysis Console (TAC) Software. A mRNA was considered as variant if the fold change between the two compared samples was higher than 1.2 and the associated ANOVA p-value was lower than 0.05.
|
| |
|
| Submission date |
May 11, 2023 |
| Last update date |
Apr 30, 2024 |
| Contact name |
Hejer Boutej |
| E-mail(s) |
hajer.boutej.1@ulaval.ca
|
| Organization name |
LAVAL University
|
| Department |
NEUROBIOLOGY
|
| Lab |
CERVO
|
| Street address |
2601, de la Canardière
|
| City |
Québec |
| State/province |
Québec |
| ZIP/Postal code |
G1J 2G3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16570 |
| Series (1) |
| GSE232244 |
Differential Expression Data from Mice 24hrs after stroke |
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