|
| Status |
Public on Jul 17, 2013 |
| Title |
Pten-/-;Dicer wild-type, sample 3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Dicer wild-type
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
genotype/variation: Pten-/-; Dicer wild-type
tissue: Cancerous urogenital tissues
|
| Growth protocol |
The ARR2PB-Cre transgenic mice were from Dr. Fen Wang at the Institute of Bioscience and Technology, Texas A&M Health Science Center. The Ptenfl/fl mice were from Dr. Hong Wu at the University of California Los Angeles. ARR2PB-Cre;Ptenfl/fl;Dicerfl/wt female mice and Ptenfl/fl;Dicerfl/wt male mice were mated to generated ARR2PB-Cre;Ptenfl/fl, ARR2PB-Cre;Ptenfl/fl;Dicerfl/wt, and ARR2PB-Cre;Ptenfl/fl;Dicerfl/fl mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions. Microarray analysis was performed using 2.5 micrograms of total RNA.
|
| Label |
Alexa Fluor 647
|
| Label protocol |
Complementary DNA (cDNA) reverse transcription and fluorescent labeling reactions were carried out using SuperScript Plus Direct cDNA Labeling system (Invitrogen, Carlsbad, CA).
|
| |
|
| Channel 2 |
| Source name |
mouse, universal reference RNA
|
| Organism |
Mus musculus |
| Characteristics |
sample type: Stratagene, Universal Mouse Reference RNA Catalog #740100
|
| Growth protocol |
The ARR2PB-Cre transgenic mice were from Dr. Fen Wang at the Institute of Bioscience and Technology, Texas A&M Health Science Center. The Ptenfl/fl mice were from Dr. Hong Wu at the University of California Los Angeles. ARR2PB-Cre;Ptenfl/fl;Dicerfl/wt female mice and Ptenfl/fl;Dicerfl/wt male mice were mated to generated ARR2PB-Cre;Ptenfl/fl, ARR2PB-Cre;Ptenfl/fl;Dicerfl/wt, and ARR2PB-Cre;Ptenfl/fl;Dicerfl/fl mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions. Microarray analysis was performed using 2.5 micrograms of total RNA.
|
| Label |
Alexa Fluor 555
|
| Label protocol |
Complementary DNA (cDNA) reverse transcription and fluorescent labeling reactions were carried out using SuperScript Plus Direct cDNA Labeling system (Invitrogen, Carlsbad, CA).
|
| |
|
| |
| Hybridization protocol |
The sample and reference probes were mixed with GEx hybridization buffer and blocking solution (Agilent, Santa Clara, CA) and denatured by a 2-minute incubation at 95 degC. Probes were hybridized to Agilent 4x44K Whole Mouse Genome arrays and rotating over night at 65 degC.
|
| Scan protocol |
Slide were scanned in an Agilent Microarray Scanner and the data were analyzed using Agilent Feature Extraction Software (v.9.1).
|
| Description |
36088_54_WT_4
|
| Data processing |
LOWESS normalized, background subtracted data obtained from log2 of processed Red signal/processed Green signal. Agilent and Bioconductor software (v.2.11) was used.
|
| |
|
| Submission date |
Dec 10, 2012 |
| Last update date |
Jul 17, 2013 |
| Contact name |
Chad Creighton |
| E-mail(s) |
[email protected]
|
| Organization name |
Baylor College of Medicine
|
| Department |
Biostatistics, Ducan Cancer Center
|
| Street address |
One Baylor Plaza, Mail Stop: BCM305
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL4134 |
| Series (1) |
| GSE42820 |
Gene expression changes resulting from attenuation of Dicer activity |
|
