|
| Status |
Public on Oct 05, 2016 |
| Title |
DOX-1 |
| Sample type |
RNA |
| |
|
| Source name |
tongue tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57Bl6
genotype/variation: ubiquitous and squamous cell-specific Doxycycline (DOX)- inducible Dek mice (iDek)
treated with: none (untreated)
tissue: tongue
|
| Treatment protocol |
The tongue tissues were obtained from Doxycycline(DOX)-treated mice (n-3) and non-treatede mouse. DOX treatment kept for two weeks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted with the Simply RNA tissue Kit (Promega, Fitchburg, Wisconsin (WI), USA) on a Maxwell RSC instrument.
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cRNA was prepared from 0.1ug Total RNA using the Low Input Quick Amp Labeling Kit(Agilent) according to the manufacturer's instructions, followed by RNeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-2000 Spectrophotometer.
|
| |
|
| Hybridization protocol |
0.6ug of Cy3-labelled cRNA was fragmented at 60°C for 30 minutes in a reaction volume of 25 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturer’s instructions. On completion of the fragmentation reaction, 25 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to SurePrint G3 mouse GE 8x60K Microarray (Agilent) for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent).
|
| Scan protocol |
Slides were scanned immediately after washing on the Agilent SureScan Microarray Scanner (G2600D) using one color scan setting for 8x60k array slides (Scan Area 61x21.6 mm, Scan resolution 3um, Dye channel is set to Green PMT is set to 100%).
|
| Description |
AR2538_01_ScaleSig
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 11.5.1.1(Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities.
|
| |
|
| Submission date |
Oct 04, 2016 |
| Last update date |
Oct 05, 2016 |
| Contact name |
Hiroyuki Tomita |
| Organization name |
Gifu University
|
| Street address |
1-1 Yanagido
|
| City |
Gifu |
| ZIP/Postal code |
5011194 |
| Country |
Japan |
| |
|
| Platform ID |
GPL13912 |
| Series (1) |
| GSE87587 |
Dek overexpression under the environment exposed to carcinogen in oral squamous cell. |
|
