|
| Status |
Public on Dec 31, 2013 |
| Title |
WT Control replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
WT whole embryo
|
| Organism |
Danio rerio |
| Characteristics |
hours post fertilization: 4.7
chx treatment: no
microinjection: no
|
| Treatment protocol |
Embryos of the genotypes indicated were injected with 50-100 pg/embryo of Klf4 mRNA, FoxD3 mRNA, or Nanog-like mRNA or left uninjected. When indicated (CHX) at 1.5 hpf, the embryos were placed into 15 mkg/ml Cycloheximide solution (Calbiochem) until 4.7 hpf. Embryos were frozen at 4.7 hpf for RNA isolation.
|
| Growth protocol |
WT (wild type) or MZ(MZspg) embryos carrying the m793 allele of the spg mutation were used.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
60-100 embryos per sample were snap-frozen in liquid nitrogen, and total RNA was isolated using the RNA Easy kit (Qiagen). Sample quality was assessed in an Agilent Bioanalyzer 2100, using the RNA 6000 nano Assay Kit.
|
| Label |
Cy5
|
| Label protocol |
Samples were processed by Agilent Technologies Two-Color Microarray-Based Gene Expression Analysis kit according to Agilent Two-color Microarray based gene expression analysis protocol.
|
| |
|
| Hybridization protocol |
Agilent Gene Expression Hybridization Kit was used . Micorarrays were hybridized in the Agilent 2545A hybridization oven according Agilent Two-color Microarray based gene expression analysis protocol.
|
| Scan protocol |
Scanned on an Agilent G2565AA scanner
|
| Description |
US90900275_251506410438_S01_GE2_107_Sep09_QC_1_3.txt
WT Control replicate 3
|
| Data processing |
Data were extracted using Agilent Feature Extraction Software and GE2-107_95_Sep09_QC protocol.
Further Normalisation and processing of the data was done using Genedata Expressionist and Analyst software. Cy3 and Cy5 channels of each microarray were normalized using quantile normalization.
|
| |
|
| Submission date |
Mar 08, 2013 |
| Last update date |
Feb 06, 2023 |
| Contact name |
Daria Onichtchouk |
| E-mail(s) |
daria.onichtchouk@biologie.uni-freiburg.de
|
| Phone |
00497612032595
|
| Organization name |
University of Freiburg
|
| Street address |
Hauptstrasse 1
|
| City |
Freiburg |
| ZIP/Postal code |
79104 |
| Country |
Germany |
| |
|
| Platform ID |
GPL7302 |
| Series (2) |
| GSE44982 |
Experiment 1: Overexpression experiments at 30% epiboly MZspg and WT embryos with or without protein synthesis inhibition |
| GSE45013 |
Transcriptional targets of Pou5f1 in Zebrafish (Danio Rerio) |
|
