|
| Status |
Public on May 25, 2010 |
| Title |
calorically restricted, old, poor performing, rat dentate gyrus, replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
calorically restricted, old, poor performing, rat dentate gyrus, replicate 3
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: F344xBN
tissue: Hippocampus
tissue region: DG
diet: calorically restricted
behavioral performance: poor performers
age (months): 28
|
| Treatment protocol |
Ad libitum (AL) fed and calorie restricted (CR) male F344xBN rats aged 18 or 28 months were obtained from the National Institute on Aging (NIA) rodent colony. Reduction of calorie intake began at 14 weeks of age starting with 10%, 25%, and finally 40% restriction at 17 weeks until the end of the experiment.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Brains were quickly removed and placed on an ice-cold petridish then bisected by making a vertical incision along the midline such that the two hemispheres were separated. The neocortex of each hemisphere was then resected in order to expose and remove the hippocampi using forceps and a spatula. The CA1, CA3, and dentate gyrus (DG) regions were then separated using a curved razor blade to make a lateral incision along the ventral side of the hippocampus in order to separate the CA3 region. Next, the remaining hippocampi was rotated 90 degrees and a dorsal-ventral oriented incision was made in order to separate the DG and CA1 regions. Tissue from each region was immediately snap-frozen in liquid nitrogen upon dissection.
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Purified RNA was labeled and hybridized to RAE 230 V2.0 gene chips (one chip per region per animal) by the NIH core facility.
|
| |
|
| Hybridization protocol |
Purified RNA was labeled and hybridized to RAE 230 V2.0 gene chips (one chip per region per animal) by the NIH core facility.
|
| Scan protocol |
The chips were scanned with an Affymtrix GeneChip Scanner 3000, and the raw data (available at the nih neuorscience microarray consortium, http://arrayconsortium.tgen.org/np2/viewProject.do?action=viewProject&projectId=522821) were processed with Affymetrix GCOS software.
|
| Description |
Neuro-Foster-54 CRO PP DG R12-RAE230_2
|
| Data processing |
Normalization and computation of gene expression values were performed using the perfect-match-only method by inputting data (.cel files) into dChip (Li and Wong, 2001); subsequent statistical and GO analyses were performed in BRB array tools.
|
| |
|
| Submission date |
May 05, 2010 |
| Last update date |
May 24, 2010 |
| Contact name |
Zane Zeier |
| E-mail(s) |
[email protected]
|
| Phone |
352-246-3455
|
| Organization name |
Scripps
|
| Department |
Neuroscience
|
| Street address |
130 Scripps Way
|
| City |
Jupiter |
| State/province |
FL |
| ZIP/Postal code |
33458 |
| Country |
USA |
| |
|
| Platform ID |
GPL1355 |
| Series (1) |
| GSE21681 |
Expression data from aged, calorically restricted rat hippocampal regions CA1, CA3, and DG |
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