|
| Status |
Public on Dec 27, 2012 |
| Title |
HET Brain 59d Mouse1 |
| Sample type |
RNA |
| |
|
| Source name |
Brain from 59 days Npc1+/- mouse1
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Brain
genotype: Npc1+/-
age: 59 days
subject: Mouse1
genetic background: BALB/c
|
| Growth protocol |
Mouse were kept and breeding was done at Freimann Life Scinece Center, University of Notre Dame, IN.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from brain, liver and speleen was isolated using 'Roche MagNa Pure Compact automated System' according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared using 'MessageAmpTM Premier Amplification Kit (Invitrogen)' according to the manufactureres instrcutions.
|
| |
|
| Hybridization protocol |
Affymetrix mouse 430 2.0 array hybridization were performed by 'UCLA Clinical Microarray Core, UCLA, Los Angeles, CA, USA, according to manufacturer's instrcutions
|
| Scan protocol |
The acquisition if array image was undertaken by using Affymetrix GeneChip Command Console 1.1 (AGCC).
|
| Description |
Gene expression data from brain of Npc1+/- mouse1 of age 59 days
|
| Data processing |
The data were analyzed using DNA-Chip Analyzer (D-Chip) with the .CEL files obtained from AGCC. We used a PM/MM difference model for estimating gene expression level and quantile approach for data normalization.
Thresholds for selecting significant genes were set at a relative difference ³1.5-fold, absolute difference ³100 signal intensity units and p<0.05. Genes that met all three criteria simultaneously were considered as significant change.
|
| |
|
| Submission date |
Jul 24, 2012 |
| Last update date |
Dec 27, 2012 |
| Contact name |
Md Suhail Alam |
| E-mail(s) |
salam@nd.edu
|
| Phone |
574-631-3227
|
| Organization name |
University of Notre Dame
|
| Department |
Center for Rare and Neglected Diseases/Biological Sciences
|
| Lab |
Haldar lab
|
| Street address |
103 Galvin, University of Notre Dame, IN
|
| City |
Notre Dame |
| State/province |
IN Indiana |
| ZIP/Postal code |
46545 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE39621 |
Expression data from brain, liver and spleen of Npc1-/- mice |
|
