|
| Status |
Public on Dec 01, 2011 |
| Title |
pfc_sal_bxd33 |
| Sample type |
RNA |
| |
|
| Source name |
saline_BXD
|
| Organism |
Mus musculus |
| Characteristics |
strain: BXD33
gender: male
age: 10-12 weeks
tissue: Medial prefrontal cortex
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with Aurum total RNA fatty and fibrous tissue extraction kit (BioRad Cat# 732-6830). RNA concentration was determined by Experion automated electrophoresis system.
|
| Label |
biotin
|
| Label protocol |
cRNA was synthesized and biotin labeled using Affymetrix GeneChip IVT labeling kit.
|
| |
|
| Hybridization protocol |
Labeled cRNA and hybridization controls were hybridized to Mouse Genome 430 2.0 microarrays according to the manufacturer’s protocol.
|
| Scan protocol |
Microarrays were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Data processing |
Microarray data analysis was conducted using bioconductor’s affy package for R. Array quality was assessed by inspecting the distributions of log-transformed probe intensity values, as well as scanning for outlier chips using a standard battery of quality measurements, including: average background, scaling factor, percentage of probe-sets called present and 3'-5' actin ratios. Expression data from the saline and ethanol treatment groups were background corrected, quantile normalized and summarized using the robust multi-array average (RMA) expression measure.
|
| |
|
| Submission date |
Apr 11, 2011 |
| Last update date |
Jun 19, 2014 |
| Contact name |
Michael Miles |
| E-mail(s) |
Michael.Miles@vcuhealth.org
|
| Organization name |
Virginia Commonwealth Univ.
|
| Department |
Pharmacology and Toxicology
|
| Lab |
Miles
|
| Street address |
PO Box 980613
|
| City |
Richmond |
| State/province |
VA |
| ZIP/Postal code |
23298 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE28515 |
Effect of acute ethanol on medidal prefrontal cortex across BXD genetic mapping panel and progenitors. |
|
