|
| Status |
Public on Jul 09, 2013 |
| Title |
Wild-type Novelty TSA Rep2 |
| Sample type |
RNA |
| |
|
| Source name |
hippocampal tissue from wild-type mice treated with TSA and exposed to Novelty
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57/DBA F1 hybrid
genotype/variation: wild-type
tissue: hippocampus
|
| Treatment protocol |
Experiments were performed in 3 month old animals and in all cases the mice used as control were littermates of the treated mice. Standard housing consisted of 30x15x11 cm clear cages occupied by up to 5 mice. Exposure to novelty consisted of placing an individual animal in a white plexiglas square box containin plastic tubing and small toys for 1h. The brains were immediately removed, and hippocampi rapidly dissected and placed in RNAlater solution (Qiagen, Venlo, The Netherlands) until total RNA extraction.
|
| Growth protocol |
Mice were cbp+/- or wild-type littermates C57/DBA F1 hybrid females. Mice were group-housed in single-sex cages on a light:dark cycle (12/12 h) with food and water available ad limitum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted separately from individual hippocampi using Trizol Reagent (Invitrogen, Carlsbad, CA, USA) per manufacturers instructions followed by DNaseI treatment (Qiagen, Valencia, CA, USA) and a clean-up step using RNeasy RNA purification columns (Qiagen, Valencia, CA, USA). Equal amounts of total RNA from four animals were pooled, processed, and hybridized to GeneChIP® Mouse Gene 1.0 ST Arrays (Affymetrix, Santa Clara, CA) according to the manufacture's protocol. Three to five independent biological replicates were prepared for each condtition (standar housing and novelty; vehicle and TSA treatment). GeneChIP® Mouse Gene 1.0 ST Arrays were hybridized, stained, washed and screened for quality according to the manufacturer's protocol. Microarray data were processed, normalized and statistically analyzed using GeneSpring GX 11 (Agilent Technologies, Santa Clara, CA).
|
| Label |
biotin
|
| Label protocol |
Following Affymetrix instructions
|
| |
|
| Hybridization protocol |
Following Affymetrix instructions
|
| Scan protocol |
Following Affymetrix instructions
|
| Description |
Gene expression data from hippocampal tissue
|
| Data processing |
GeneSpring GX 11 software (Agilent Technologies Inc) was used. RMA algorithm was uset to background correction, data normalization and probe sumarization.
|
| |
|
| Submission date |
Dec 20, 2012 |
| Last update date |
Sep 16, 2019 |
| Contact name |
Angel Barco |
| Organization name |
Instituto de Neurociencias (UMH-CSIC)
|
| Street address |
Av. Santiago Ramón y Cajal
|
| City |
Sant Joan d'Alacant |
| State/province |
Alicante |
| ZIP/Postal code |
03550 |
| Country |
Spain |
| |
|
| Platform ID |
GPL6246 |
| Series (2) |
| GSE43051 |
Gene expression profiling of neural HDAC inhibition |
| GSE44868 |
Genomic targets, and histone acetylation and gene expression profiling of neural HDAC inhibition |
|
