|
Status |
Public on Apr 30, 2012 |
Title |
12h amputated animals |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
regenerating fragments
|
Organism |
Schmidtea mediterranea |
Characteristics |
tissue: regenerating fragments treatment: amputated time: 12h sample type: clone W4, asexual
|
Treatment protocol |
Animals were amputated 7 days following feeding and left to regenerate for indicated time points. Irradiated animals were amputated 5 days following irradiation (Cesium source - 6000rad)
|
Growth protocol |
Clone W4 Schmidtea mediterranea were kept at 20degree Celsius in Monbijou Salts
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using TRIZOL according to manufacterer's instructions
|
Label |
Cy5
|
Label protocol |
RNA was labeled using Perkin Elmer's ASAP labeling kit
|
|
|
Channel 2 |
Source name |
freshly amputated fragments
|
Organism |
Schmidtea mediterranea |
Characteristics |
tissue: freshly amputated fragments treatment: control sample type: clone W4, asexual
|
Treatment protocol |
Animals were amputated 7 days following feeding and left to regenerate for indicated time points. Irradiated animals were amputated 5 days following irradiation (Cesium source - 6000rad)
|
Growth protocol |
Clone W4 Schmidtea mediterranea were kept at 20degree Celsius in Monbijou Salts
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using TRIZOL according to manufacterer's instructions
|
Label |
Cy3
|
Label protocol |
RNA was labeled using Perkin Elmer's ASAP labeling kit
|
|
|
|
Hybridization protocol |
Agilent DNA microarray scanner
|
Scan protocol |
Agilent’s Feature Extraction Image Analysis software with the default two-color gene expression protocol
|
Description |
Biological replica 1 of 3. fragments harvested 12h following amputation
|
Data processing |
Agilent two-color arrays were within-array normalized by loess, followed by between-array quantile normalization of average intensities across channels (Aquantile). Differential expression analysis was performed using a moderated t-test, as implemented in the limma package of Bioconductor, with P-value correction by false discovery rate.
|
|
|
Submission date |
Mar 29, 2012 |
Last update date |
Apr 30, 2012 |
Contact name |
Danielle Wenemoser |
E-mail(s) |
wenemoser@wi.mit.edu
|
Phone |
617-324-2147
|
Organization name |
Whitehead Institute for Biomedical Research
|
Lab |
Reddien Lab
|
Street address |
9 Cambridge Center
|
City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02139 |
Country |
USA |
|
|
Platform ID |
GPL14150 |
Series (1) |
GSE36945 |
Unirradiated vs. irradiated wounded planarians |
|