|
| Status |
Public on May 09, 2011 |
| Title |
hi559 Wild Type Repl3 |
| Sample type |
RNA |
| |
|
| Source name |
Phenotyped whole wild type embryo at 5 dpf
|
| Organism |
Danio rerio |
| Characteristics |
strain: cdipt^hi559Tg
phenotype: Wild Type
age: 5 dpf
replicate: 3
|
| Treatment protocol |
Embryos were sorted based on phenotype into mutant and wild type embryos.
|
| Growth protocol |
Embryos from an incross of heterozygous cdipt^hi559Tg/+ parents were grown until 5 dpf in standard embryo media at 28° C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was prepared from 25 embryos for each phenotype with RNeasy (QIAGEN).
|
| Label |
biotin
|
| Label protocol |
Affymetrix GeneChip One-Cycle Target Labeling and Control Reagents, manufacturer's protocol.
|
| |
|
| Hybridization protocol |
Hybridization protocol used was EukGE-WS2v4 on an Affymetrix GeneChip Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned with an Affymetrix scanner according to the manufacturer's protocol.
|
| Description |
WT3
|
| Data processing |
Expression values were extracted with RMA (Affy Library in R). Each array was normalized by log2-transformation, subtraction of median, and division with standard deviation.
|
| |
|
| Submission date |
Aug 18, 2009 |
| Last update date |
May 09, 2011 |
| Contact name |
Carsten Stuckenholz |
| E-mail(s) |
cstucken@pitt.edu
|
| Phone |
(412) 648-3159
|
| Fax |
(412) 383-5918
|
| Organization name |
University of Pittsburgh
|
| Department |
Department of Medicine, Division of Hematology and Oncology
|
| Lab |
Bahary
|
| Street address |
3501 Fifth Avenue, Room 5065.5B
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15260 |
| Country |
USA |
| |
|
| Platform ID |
GPL1319 |
| Series (1) |
| GSE17711 |
Lack of de novo phosphatidylinositol synthesis leads to endoplasmic reticulum stress and hepatic steatosis in cdipt-deficient zebrafish |
|
