|
| Status |
Public on Mar 15, 2018 |
| Title |
control-rep1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
control
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL6
genotype/variation: control
tissue: spleen
|
| Treatment protocol |
Mice with conditional expression of the most common RVCL mutation, V235fs, and another mice expressing a conditional C-terminal mutation, D272fs, associated with a case of human SLE, were generated. All mice used in this study were maintained under specific pathogen free conditions
|
| Growth protocol |
Mice were bred and maintained at the National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Isolate RNA using Trizol Reagent and clean up RNAs with Qiagen Rnase kit
|
| Label |
Cy3
|
| Label protocol |
Labeling RNA,(one for Cy3 and one for Cy5) using dUTP-Cy3 OR dUTP Cy5 by incubating reverse transcription reaction mixture at 42°C for 90 min, followed by degrading RNA and cleaning up labeled cDNA.
|
| |
|
| Channel 2 |
| Source name |
Reference RNA
|
| Organism |
Mus musculus |
| Characteristics |
sample type: Universal reference RNA
|
| Treatment protocol |
Mice with conditional expression of the most common RVCL mutation, V235fs, and another mice expressing a conditional C-terminal mutation, D272fs, associated with a case of human SLE, were generated. All mice used in this study were maintained under specific pathogen free conditions
|
| Growth protocol |
Mice were bred and maintained at the National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Isolate RNA using Trizol Reagent and clean up RNAs with Qiagen Rnase kit
|
| Label |
Cy5
|
| Label protocol |
Labeling RNA,(one for Cy3 and one for Cy5) using dUTP-Cy3 OR dUTP Cy5 by incubating reverse transcription reaction mixture at 42°C for 90 min, followed by degrading RNA and cleaning up labeled cDNA.
|
| |
|
| |
| Hybridization protocol |
Chips were prehybridized in a sealed chamber immersed in a 42°C waterbath using established procedures.Chips were then washed twice for 2 min with agitation, first in ultra-pure water, then in isopropyl alcohol. After the last isopropyl alcohol wash, samples were quickly placed in a room-temperature centrifuge and spun dry (3000 rmp, 5 min). The chips were hybridized overnight in a sealed humidified slide chamber immersed in a light-protected 42°C waterbath, then washed, dried, and stored in the dark until scanned.
|
| Scan protocol |
Chips were scanned using an Axon 4000B scanner and GenePix 4.0 software. Photomultiplier tube voltage settings were adjusted to allow 1% saturation of signal in both channels.
|
| Description |
C57BL6
|
| Data processing |
Image data were extracted, and extracted data were normalized with lowess smoothing function.
|
| |
|
| Submission date |
Mar 16, 2017 |
| Last update date |
Mar 15, 2018 |
| Contact name |
Chong-Su Kim |
| E-mail(s) |
wjdtn878@gmail.com
|
| Organization name |
Seoul national university
|
| Department |
Food and nutrition
|
| Lab |
Nutritional physiology lab
|
| Street address |
Gwanak-ro 1, Gwanak-gu
|
| City |
Seoul |
| ZIP/Postal code |
151-742 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL18619 |
| Series (1) |
| GSE96687 |
Identification of gene expression patterns in spleen of TREX1-mutated mice |
|
