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Sample GSM440845 Query DataSets for GSM440845
Status Public on Mar 01, 2010
Title MZ 40% epiboly replicate 3
Sample type RNA
 
Source name MZ whole embryo
Organism Danio rerio
Characteristics hours post fertilization: 5
stage: 40% epiboly
Treatment protocol Embryos of the genotypes indicated were were frozen for RNA isolation at the indicated stages
Growth protocol M 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 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 protocoll
 
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 protocoll
Scan protocol Scanned on an Agilent G2565AA scanner
Description M and MZ_40%epiboly replicate 3
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)
GSE17656 Experiment 3: Comparison of MZspg and Mspg transcriptomes
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 11232.89
DarkCorner 98.84897
A_15_P119205 79452.69
A_15_P111700 320.1839
A_15_P104358 213.1116
A_15_P100254 137.0882
A_15_P116237 70.39735
A_15_P105104 100.0231
A_15_P100012 20798.31
A_15_P106735 1950.031
A_15_P103037 70.18214
A_15_P101834 8027.024
A_15_P110751 1685.292
A_15_P112178 74.00421
A_15_P119305 6411.926
A_15_P106450 71.82053
A_15_P105607 174.8127
A_15_P109489 2880.697
A_15_P103593 139.3906
A_15_P111179 1663.661

Total number of rows: 21513

Table truncated, full table size 457 Kbytes.




Supplementary file Size Download File type/resource
GSM440845_270508_251506410442_S01_GE2-v5_95_Feb07_1_3_M_MZ_40percentepiboly_R3_12.txt.gz 13.4 Mb (ftp)(http) TXT
Processed data included within Sample table

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