|
| Status |
Public on May 13, 2009 |
| Title |
Embryo at Day 1, female biological replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
Female
|
| Organism |
Gallus gallus |
| Characteristics |
tissue: Embryo
developmental stage: Hamburger-Hamilton stage 4
sex: Female
age: 1 day
|
| Treatment protocol |
Primitive streak tissues (400umx400um at 70% to 90% streak level) were dissected out using tungsten needle under dissecting microscope. Tissues were then rinsed in ice cold Tyrode's solution and transfered into the Trizol solution (GibcoBRL). Then they were frozen immediately on dry ice and stored at -80 degrees.
|
| Growth protocol |
HH stage 4- chicken embryos were dissected out of eggs and put on EC culture in humidified incubator for 3 hours at 380C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 50ng total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNA were hybridized for 16 hr at 45C on GeneChip Chicken Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Standard Affymetrix Scanner
|
| Description |
chicken embryo at 1 day old
|
| Data processing |
The data were analyzed with MAS5 data processing method implemented in Bioconductor-Affy package with 100 as target intensity.
|
| |
|
| Submission date |
May 12, 2009 |
| Last update date |
May 12, 2009 |
| Contact name |
Sachin Mathur |
| E-mail(s) |
sm7rf@umkc.edu
|
| Organization name |
University of Missouri Kansas City
|
| Department |
School of Computing & Engineering
|
| Street address |
5100 Rockhill Drive
|
| City |
kansas city |
| State/province |
MO |
| ZIP/Postal code |
64112 |
| Country |
USA |
| |
|
| Platform ID |
GPL3213 |
| Series (1) |
| GSE16064 |
Sex-dimorphic gene expression and ineffective dosage compensation of Z-linked genes in gastrulating chicken embryos |
|
