|
| Status |
Public on Dec 05, 2012 |
| Title |
Retina of WT C57BL/6J vs. RNV of OIR C57BL/6J, P8, replicate 3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
normal retina of wild-type mice, postnatal 8 days (N8)
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57BL/6J
genotype: WT
tissue: retina
developmental stage: postnatal day 8
|
| Treatment protocol |
RNV induction with 75%±2% oxygen.
|
| Growth protocol |
OIR C57BL/6J model: newborn pups at postnatal day 7 were transferred to chambers supplied with 75%±2% oxygen for 5 days, returned to room air at P12, and remained in this condition until sacrifice; wild-type C57BL/6J pups were rasied in room air from birth to sacrifice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol following the manufacturer's instructions.
|
| Label |
Cy5, Cy3
|
| Label protocol |
The sample preparation reagent used for this service is the Ambion MessageAmp aRNA kit (Cat. No. 1753) or the Ambion amino allyl cDNA kit (Cat. No. 1705). The reactive amino group of 5-(3-aminoallyl)-UTP/5-(3-aminoallyl)-dUTP was used to conjugate the purified aRNA/cDNA with the NHS-CyDye. Labeling efficiency can be calculated by the concentration of CyDye and aRNA/cDNA measured by NanoDrop ND-1000. For the sake of good microarray results, labeling efficiency should be above 10.
|
| |
|
| Channel 2 |
| Source name |
RNV of OIR mice, postnatal 8 days (P8)
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57BL/6J
genotype: OIR
tissue: retina
developmental stage: postnatal day 8
|
| Treatment protocol |
RNV induction with 75%±2% oxygen.
|
| Growth protocol |
OIR C57BL/6J model: newborn pups at postnatal day 7 were transferred to chambers supplied with 75%±2% oxygen for 5 days, returned to room air at P12, and remained in this condition until sacrifice; wild-type C57BL/6J pups were rasied in room air from birth to sacrifice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol following the manufacturer's instructions.
|
| Label |
Cy3, Cy5
|
| Label protocol |
The sample preparation reagent used for this service is the Ambion MessageAmp aRNA kit (Cat. No. 1753) or the Ambion amino allyl cDNA kit (Cat. No. 1705). The reactive amino group of 5-(3-aminoallyl)-UTP/5-(3-aminoallyl)-dUTP was used to conjugate the purified aRNA/cDNA with the NHS-CyDye. Labeling efficiency can be calculated by the concentration of CyDye and aRNA/cDNA measured by NanoDrop ND-1000. For the sake of good microarray results, labeling efficiency should be above 10.
|
| |
|
| |
| Hybridization protocol |
Phalanx Hybridization Protocol.
|
| Scan protocol |
Scanned on a GenePix 4000B [90708].
|
| Description |
This Sample represents 2 dye-swap samples.
RNV_P8_Rep3_1.gpr: Cy5=WT; Cy3=OIR
RNV_P8_Rep3_2.gpr: Cy5=OIR; Cy3=WT
The non-averaged log2 normalized ratios (Cy5/Cy3) in the Sample data table are derived from RNV_P8_Rep3_1.gpr and RNV_P8_Rep3_2.gpr.
|
| Data processing |
Data extraction and filtering, LOWESS normalized (R language software was used), MA plot for each array, calculated average log2 ratios (treated vs. control sample).
|
| |
|
| Submission date |
Jun 15, 2012 |
| Last update date |
May 08, 2017 |
| Contact name |
Yiqiang Wang |
| E-mail(s) |
[email protected]
|
| Phone |
86-512-88970213
|
| Organization name |
Xi'an Jiaotong-Liverpool University
|
| Street address |
111 Renai Road
|
| City |
Suzhou |
| State/province |
Jiangsu |
| ZIP/Postal code |
215123 |
| Country |
China |
| |
|
| Platform ID |
GPL6845 |
| Series (1) |
| GSE38762 |
Gene Expression Profiling In Murine Retina Neovascularization Models |
|
