|
| Status |
Public on Sep 13, 2010 |
| Title |
Brain_normal_1 |
| Sample type |
RNA |
| |
|
| Source name |
Ferret whole brain
|
| Organism |
Mustela putorius furo |
| Characteristics |
tissue: Brain
gender: Male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol RNA extraction according to protocol supplied by InVitrogen for preparation of total RNA for brain, liver, spleen and lungs. PaxGene RNA system from total RNA extraction from blood, according to manufacturers protocol.
|
| Label |
cy3
|
| Label protocol |
One-Color Microarray-Based Gene Expression Analysis (Quick Amp Labeling) Protocol, V5.7
|
| |
|
| Hybridization protocol |
One-Color Microarray-Based Gene Expression Analysis (Quick Amp Labeling) Protocol, V5.7
|
| Scan protocol |
The arrays were then scanned using a GenePix 4000B scanner (Molecular Devices, Sunnyvale, CA). Each slide was scanned at 5 um resolution with two different PMT settings (450 and 480 V). The 450V scans were used for all tissues except for blood.
|
| Description |
platform: v2
|
| Data processing |
The image files were opened in Agilent's Feature Extraction software using the default Gene Expression protocol and the GE1_QCM_Feb07 quality control metric set. This software performed gridding, quality control and feature extraction. The individual tab delimited raw data files were then opened in MS Excel and the column containing the signal intensity (gProcessedSignal) was normalized by dividing all data points with the signal value of the 75th percentile of all of non-control probes (gPercentileIntensityProcessedSignal), as suggested by Agilent. The average gPercentileIntensityProcessedSignal for all experiemnts was then used to scale each indiviual array to allow for comparision. This is the procedure recomended by Agilent.
|
| |
|
| Submission date |
Dec 09, 2009 |
| Last update date |
Sep 13, 2010 |
| Contact name |
Carl E Bruder |
| Organization name |
Southern Research Institute
|
| Department |
Viral Biochemistry
|
| Street address |
2000 9th Ave South
|
| City |
Birmingham |
| State/province |
AL |
| ZIP/Postal code |
35255 |
| Country |
USA |
| |
|
| Platform ID |
GPL9774 |
| Series (1) |
| GSE19398 |
Development of molecular genetic analysis tools for the domestic ferret (Mustela putorius furo) |
|
