|
| Status |
Public on Dec 04, 2013 |
| Title |
BL6_C10-50_42d_heart |
| Sample type |
RNA |
| |
|
| Source name |
Control_heart_tissue, C10R42
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Control_heart_tissue, C10R42
|
| Treatment protocol |
The experimental animals were kept in a wire mesh box inside the aggressor´s cage for 6 hours a day for either 5 or 10 consecutive days. Animals were randomly assigned to aggressors cages. Each subject mouse was randomly placed 3-5 times within the home cage of an aggressor mouse and received bites/attacks for up to 2 min (or until 10 attacks/bites occurred, whichever came first. Each day the stress procedure occurred at different times and different resident mice were used for each aggressor. Body weight and temperature of the experimental mice were measured every day prior the beginning of the social defeat period and the return to their home cages. Control mice were kept inside of the wired mesh boxes inside of a large cage without any aggressor.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from individual mouse heart samples by homogenization in TRIzol reagent per the manufacturer’s protocol (Invitrogen, Gran Island, NY). The quality and quantity of the RNA samples were evaluated using a NanoDrop ND-1000 spectrophotometer (Thermo Scientific, Waltham, MA) and Agilent 2100 BioAnalyzer (Agilent, Santa Clara, CA).
|
| Label |
Hy5
|
| Label protocol |
Total RNA from the heart tissue was labeled with either Hy3 or Hy5 dye with labeling kits from Exiqon then hybridized at 56°C for 16 h.
|
| |
|
| Hybridization protocol |
Labeled samples were hybridized to Exiqon 5th generation miRCURY LNA microRNA array according to the manufacturer's protocol.
|
| Scan protocol |
After hybridization, the slides were washed and scanned with a scanner from Agilent (Santa Clara, CA).
|
| Description |
BL6_C10-48_42d_heart_miRNA_Hy3_v_BL6_C10-50_42d_heart_miRNA_Hy5.csv
|
| Data processing |
Scanned data was processed using AnalyzerDG software. For the preprocessing of two-channel microarray data in each experimental group, Hy3 and Hy5 (high energy scanned) intensities were concatenated, normalized using LOWESS (within-array normalization) and normalized using the quantile method (between-array normalization).
|
| |
|
| Submission date |
Dec 02, 2013 |
| Last update date |
Dec 04, 2013 |
| Contact name |
Ji-Hoon Cho |
| E-mail(s) |
[email protected]
|
| Organization name |
Institute for Systems Biology
|
| Street address |
401 Terry Avenue North
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL11432 |
| Series (2) |
| GSE52869 |
miRNA expression signatures in heart tissues of mice simulating posttraumatic stress disorder (PTSD) [Study1] |
| GSE52875 |
Expression signatures in heart tissues of mice simulating posttraumatic stress disorder (PTSD) |
|
