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Sample GSM440823 Query DataSets for GSM440823
Status Public on Mar 01, 2010
Title WT at 7 hpf replicate 2
Sample type RNA
 
Source name WT whole embryo
Organism Danio rerio
Characteristics hours post fertilization: 7
stage: 60% epiboly
Treatment protocol Embryos of the genotypes indicated were precisely staged either following in vitro fertilization (t=0 hpf), or using natural crosses and staging at the 4-cell stage (t=1 hpf)
Growth protocol WT embryos of AB x TÜB strain crosses (www.ZFIN.org) and MZ 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 Cy3
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 MZ to WT comparison 60p Replicate 2
Data processing Data were extracted using Agilent Feature Extraction Software and GE2-v5_95_Feb07 protocoll.
 
Submission date Aug 14, 2009
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)
GSE17655 Experiment 1: Developmental time curve in wild-type and MZspg embryos
GSE17667 Pou5f1 transcription targets in zebrafish

Data table header descriptions
ID_REF
VALUE 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 mormalization

Data table
ID_REF VALUE
GE_BrightCorner 2197.216
DarkCorner 6.063729
A_15_P119205 6178.479
A_15_P111700 1364.407
A_15_P104358 27.45828
A_15_P100254 5.33475
A_15_P116237 5.127201
A_15_P105104 7.839257
A_15_P100012 3895.629
A_15_P106735 64.049
A_15_P103037 5.042958
A_15_P101834 361.7278
A_15_P110751 83.68659
A_15_P112178 6.101442
A_15_P119305 64.74225
A_15_P106450 6.451966
A_15_P105607 5.697242
A_15_P109489 3386.009
A_15_P103593 184.2113
A_15_P111179 499.7052

Total number of rows: 21539

Table truncated, full table size 458 Kbytes.




Supplementary file Size Download File type/resource
GSM440823_US45103001_251506410379_S01_GE2-v5_95_Feb07_1_4_60percentepiboly_R2_48.txt.gz 13.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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