|
| Status |
Public on Jul 11, 2013 |
| Title |
Liver-Azacytidine-5 |
| Sample type |
RNA |
| |
|
| Source name |
liver of 4 dpf larva treated with azacytidine
|
| Organism |
Danio rerio |
| Characteristics |
genotype/variation: ahcy +/+
agent: azacytidine
developmental stage: 4 dpf larva
tissue: liver
|
| Treatment protocol |
At 2 dpf, azacytidine (1 mM) or vehicle was injected into the yolk
|
| Growth protocol |
Embryos/larvae were grown at 28 °C in E3 as per standard practice
|
| Extracted molecule |
total RNA |
| Extraction protocol |
At 4 dpf, larvae were treated with tricaine and livers were removed using thin forceps, and then placed into RNAlater
|
| Label |
biotin
|
| Label protocol |
RNA was amplified twice and then labeled with Cy3 in accordance with Affymetrix standard protocol
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA was hybridized for 16 hr at 45 °C on GeneChip Zebrafish Genome arrays. GeneChips were washed and stained in the Affymetrix Fludics Station 450
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G
|
| Description |
Gene expression data from liver of 4 dpf larva treated with azacytidine
A5
|
| Data processing |
Probe-level data in CEL files was normalized using GCRMA method implemented in Partek Genomics Suite to get gene-level expression measurements
|
| |
|
| Submission date |
Jul 11, 2013 |
| Last update date |
Jul 11, 2013 |
| Contact name |
Randolph Matthews |
| E-mail(s) |
matthews@email.chop.edu
|
| Phone |
267-426-7223
|
| Organization name |
The Children's Hospital of Philadelphia Research Institute
|
| Department |
Pediatrics/GI
|
| Street address |
3615 Civic Center Blvd
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19147 |
| Country |
USA |
| |
|
| Platform ID |
GPL1319 |
| Series (1) |
| GSE48804 |
Differentially expressed genes after inhibition of methylation |
|
