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Sample GSM1562185 Query DataSets for GSM1562185
Status Public on Jan 31, 2019
Title 4_32mg_Cl_12h
Sample type RNA
 
Source name mRNA from pooled whole zebrafish embryos, labeled with Cyanine-3 (green)
Organism Danio rerio
Characteristics tissue: whole embryo
treatment: PCE
time point: 12h
concentration: 32mg
nano: CI treated with nanomaterial (Carbo Iron 10 mg/l)
batch: four
Extracted molecule total RNA
Extraction protocol Trizol followed by RNeasy MiniKit cleanup (Qiagen) using the manufacturers’ protocols
Label Cy3
Label protocol One-Color Quick Amp Labeling Kit, according to manufacturer's protocol (Agilent Technologies, Waldbronn, Germany)
 
Hybridization protocol One-Color Quick Amp Labeling Kit, according to manufacturer's protocol (Agilent Technologies, Waldbronn, Germany)
Scan protocol Agilent DNA Microarray Scanner and Agilent Feature Extraction Software V11.5.1.1, according to manufacturer's protocol.
Data processing Background subtraction, Quantile normalization between arrays
Software for data normalization:
R software for windows (V2.15) package limma (V3.16.5)
 
Submission date Dec 09, 2014
Last update date Jan 31, 2019
Contact name Andreas SchĂĽttler
E-mail(s) schuettler@bafg.de
Organization name German Federal Institute of Hydrology
Department Department Biochemistry and Ecotoxicology
Street address Am Mainzer Tor 1
City Koblenz
ZIP/Postal code 56068
Country Germany
 
Platform ID GPL19526
Series (1)
GSE63994 Concentration dependent gene expression in zebrafish embryos after PCE exposure

Data table header descriptions
ID_REF Agilent feature number
VALUE log2-transformed, background corrected, quantile normalized intensity values

Data table
ID_REF VALUE
1 12.5551732693889
2 4.16113188298431
3 4.2215871212648
4 4.27612440527424
5 5.30492166958167
6 8.44184188033963
7 9.10090867983067
8 4.32418054661874
9 11.3986351517701
10 4.93810932621924
11 7.5535093043092
12 6.53636864955385
13 9.46400323380495
14 4.46352437327118
15 13.8961180250531
16 5.09671515448854
17 12.4655943031907
18 6.79299359100272
19 8.1616830258014
20 9.55571252184786

Total number of rows: 62976

Table truncated, full table size 1397 Kbytes.




Supplementary file Size Download File type/resource
GSM1562185_US90203617_253124110010_S01_GE1_107_Sep09_2_4.txt.gz 12.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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