|
| Status |
Public on Jul 20, 2013 |
| Title |
Retina_PTC_7days_rep1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
retina, 7 days
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
strain: C57BL/6
tissue: retina
developmental stage: adult
treatment: control
|
| Treatment protocol |
Retinal tissues were prepared from the enucleated eyes. Four retinal tissues were pooled into 1 test tube.
|
| Growth protocol |
We intravitreally injected PBS or titanium dioxide nanoparticles (PTC and 10 times PTC) into the right eyes of 8-week-old male C57BL/6 mice. One week later, the mice were sacrificed and the eyes were enucleated.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol following manufacturer's instructions.
|
| Label |
Cy3
|
| Label protocol |
10 µg of total RNA were primed with 2 µl of 100 µM T16N2 DNA primer at 70°C for 10 min, then reversed transcribed at 42°C for 1 h in the presence of 400 U SuperScript II RTase (Invitrogen), and 100 µM each dATP, dTTP, dGTP, with 25 µM dCTP, 25 µM Cy3-label
|
| |
|
| Channel 2 |
| Source name |
retina, 7 days
|
| Organism |
Mus musculus |
| Characteristics |
cell line: male
age: 8-week-old
strain: C57BL/6
tissue: retina
developmental stage: adult
treatment: PTC
|
| Treatment protocol |
Retinal tissues were prepared from the enucleated eyes. Four retinal tissues were pooled into 1 test tube.
|
| Growth protocol |
We intravitreally injected PBS or titanium dioxide nanoparticles (PTC and 10 times PTC) into the right eyes of 8-week-old male C57BL/6 mice. One week later, the mice were sacrificed and the eyes were enucleated.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol following manufacturer's instructions.
|
| Label |
Cy5
|
| Label protocol |
10 µg of total RNA were primed with 2 µl of 100 µM T16N2 DNA primer at 70°C for 10 min, then reversed transcribed at 42°C for 1 h in the presence of 400 U SuperScript II RTase (Invitrogen), and 100 µM each dATP, dTTP, dGTP, with 25 µM dCTP, 25 µM Cy3-label
|
| |
|
| |
| Hybridization protocol |
Oligoarray control targets and hybridization buffer (Agilent In Situ Hybridization Kit Plus) were added, and samples were applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers. After hybridization, slides were washed sequential
|
| Scan protocol |
Scanned on an Agilent G2565AA scanner.
|
| Description |
Con vs PTC 1_252665512820_1_3
|
| Data processing |
Agilent Feature Extraction Software (v 9.3.2.1) was used for background subtraction and LOWESS normalization.
The averages of normalized ratios were calculated by dividing the average of normalized signal channel intensity by the average of normalized control channel intensity.
|
| |
|
| Submission date |
Jul 19, 2013 |
| Last update date |
Jul 20, 2013 |
| Contact name |
Jeong Hun Kim |
| Organization name |
Seoul National University
|
| Lab |
FARB (Fight against Angiogenesis-Related Blindness) Laboratory
|
| Street address |
101, Daehak-ro, Jongno-gu
|
| City |
Seoul |
| ZIP/Postal code |
110744 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL11202 |
| Series (1) |
| GSE49048 |
Investigation of Alterations in Gene Expression in the Retina Induced by Intravitreal Injection of titanium dioxide nanoparticles |
|
