|
| Status |
Public on Oct 16, 2008 |
| Title |
Embryos uninjected biological repl. 1 (50uM) |
| Sample type |
RNA |
| |
|
| Source name |
72hpf zebrafish embryos
|
| Organism |
Danio rerio |
| Characteristics |
wild type
blank
|
| Treatment protocol |
When embryo reached 72hpf they were euthanized in MS222 and put in RNAlater solution at 4°C overnight. The samples were stored until RNA isolation at -20°C
|
| Growth protocol |
Eggs were pooled from different aquaria, washed with a E3 medium and injected with ERbeta2 MO or coMO at 50uM until the 4 cell stage. After they were raised in petri dishes until 72hpf at 28°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation was performed with Rneasy Mini Kit, Qiagen, according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
biotin-labeling using a IVT Labeling Kit (Affymetrix Inc.)
|
| |
|
| Hybridization protocol |
Affymetrix Gene Expression protocol using Fragmentation Buffer (Affymetrix Inc., P/N 900371), Hybridization Mix (Affymetrix Inc., P/N 900720), Hybridization Controls and Control Oligonucleotide B2 (Affymetrix Inc., P/N 900454). Arrays were washed using an Affymetrix Fluidics Station 450 (FS450_0004 protocol)
|
| Scan protocol |
Affymetrix GeneChip Scanner 3000 (Affymetrix Inc.), according to manufacturer
|
| Description |
gene expression in 72hpf zebrafish embryos
|
| Data processing |
Raw data processing was performed using the Affymetrix AGCC software. After hybridization and scanning, probe cell intensities were calculated by means of the MAS5 algorithm. The data were then analyzed with Genespring. The data were normalized per chip (50th percentil) and per gene (to median). They were finally filtered by fold change (fold change data files are on the Series record).
|
| |
|
| Submission date |
Oct 10, 2008 |
| Last update date |
Oct 15, 2008 |
| Contact name |
Mirjam Föhlicher |
| E-mail(s) |
mirjam.froehlicher@eawag.ch
|
| Organization name |
eawag
|
| Street address |
überlandstrasse 133
|
| City |
Dübendorf |
| ZIP/Postal code |
8600 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL1319 |
| Series (2) |
| GSE13158 |
The role of ERbeta2 in zebrafish neuromasts development 50uM |
| GSE13771 |
The role of ERbeta2 in zebrafish neuromasts development |
|
