|
| Status |
Public on Nov 17, 2014 |
| Title |
amputation2 |
| Sample type |
RNA |
| |
|
| Source name |
zebrafish heart
|
| Organism |
Danio rerio |
| Characteristics |
tissue: heart
treatment: ventricular apex amputation
|
| Treatment protocol |
Adult fish were anaesthetized in 0.4% Tricaine and secured, ventral side uppermost, in a slotted sponge. Watchmaker forceps were used to remove the surface scales and penetrate the skin, muscle and pericardial sac. Once exposed, the ventricle was gently pulled at the apex and cut with iridectomy scissors. After surgery, fish were immediately returned to system water.
|
| Growth protocol |
Zebrafish were maintained at 28.5 C following standard methods
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Small RNA (<200 bp) was obtained employing the miRNeasy mini kit (Qiagen)
|
| Label |
biotin
|
| Label protocol |
Small RNA labeling was performed using FlashTag HSR labeling kit (Genesphere) using 200 ng of small RNA, which was polyA-tailed and biotin conjugated.
|
| |
|
| Hybridization protocol |
RNA was hybridized using GeneChip reagents (Affymetrix) and protocols as indicated by the manufacturer
|
| Scan protocol |
Expression signals were scanned on an Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
3 days post-amputation
|
| Data processing |
The CEL files were analyzed using the affy package from R/Bioconductor
|
| |
|
| Submission date |
Oct 15, 2014 |
| Last update date |
Nov 18, 2014 |
| Contact name |
Christopher Benner |
| E-mail(s) |
cbenner@ucsd.edu
|
| Organization name |
University of California, San Diego (UCSD)
|
| Department |
Medicine
|
| Street address |
9500 Gilman Dr. MC 0640
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093-0640 |
| Country |
USA |
| |
|
| Platform ID |
GPL14613 |
| Series (2) |
| GSE62386 |
In vivo activation of a conserved microRNA program induces robust mammalian heart regeneration (array) |
| GSE62389 |
In vivo activation of a conserved microRNA program induces robust mammalian heart regeneration |
|
