|
| Status |
Public on Jun 07, 2014 |
| Title |
C5-746 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
pooled whole mouse tissue cell lines
|
| Organism |
Mus musculus |
| Characteristics |
vender name and catalog number: Stratagene’s Universal Mouse Reference RNA,Catalog #740100
|
| Treatment protocol |
Social Stressed (SS) mice were housed 6h box-in-box for 1-12 days sans food/liquid inside an aggressor home cage and 3x exposed at random timepoints. C mice had same schedule without aggressor proximity
|
| Growth protocol |
growth protocol is not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
Total RNA (200 ng) was used as starting material, which was amplified using the Quick Amp Two-Color Kit (Agilent Technologies).The labelled cDNA was purified using an RNeasy Mini Kit (Qiagen, Hilden, Germany), and eluted, labelled cRNA was quantified using a NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific Inc, Waltham, MA, USA).
|
| |
|
| Channel 2 |
| Source name |
Control Liver tissue, 5 day untreated, harvested after 1 day rest period.
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL6/J
tissue type: liver
|
| Treatment protocol |
Social Stressed (SS) mice were housed 6h box-in-box for 1-12 days sans food/liquid inside an aggressor home cage and 3x exposed at random timepoints. C mice had same schedule without aggressor proximity
|
| Growth protocol |
growth protocol is not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
Total RNA (200 ng) was used as starting material, which was amplified using the Quick Amp Two-Color Kit (Agilent Technologies).The labelled cDNA was purified using an RNeasy Mini Kit (Qiagen, Hilden, Germany), and eluted, labelled cRNA was quantified using a NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific Inc, Waltham, MA, USA).
|
| |
|
| |
| Hybridization protocol |
cRNA was hybridized to a whole mouse genome microarray (Agilent Technologies) following manufacturer's instructions
|
| Scan protocol |
Scanned on a Agilent Technologies Scanner G2600D Images were quantified using Agilent Feature Extraction Software
|
| Description |
Transcriptional profiling of liver tissue from 5d C+ 1d rest: C57BL6/J
Biological replicate 3 of 4. Control Liver tissue, 5 day untreated, harvested after 1 day rest period.
|
| Data processing |
Agilent Feature Extraction Software (v 11.5.1.1) was used for background subtraction and LOWESS normalization.
|
| |
|
| Submission date |
Jun 06, 2014 |
| Last update date |
Jun 07, 2014 |
| Contact name |
Meskerem Jibitu |
| E-mail(s) |
Meskerem.S.Jibitu.ctr@mail.mil
|
| Phone |
301-619-9623
|
| Organization name |
US Army Center for Environmental Health Research
|
| Department |
Integrative Systems Biology
|
| Street address |
568 Doughten Drive
|
| City |
Fort Detrick |
| ZIP/Postal code |
21702-5010 |
| Country |
USA |
| |
|
| Platform ID |
GPL4134 |
| Series (1) |
| GSE58275 |
Liver Transcriptomics data from mouse model with Features of Post-traumatic Stress Disorder |
|
