GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1562181 Query DataSets for GSM1562181
Status Public on Jan 31, 2019
Title 4_4mg_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: 4mg
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
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
1 12.9487978174501
2 4.36850646150769
3 4.29920801838728
4 4.29920801838728
5 4.82734270423412
6 8.94571815646257
7 8.91849059229231
8 4.49785183695112
9 11.2709842021843
10 5.06069593168755
11 7.73110685438803
12 6.76404221730659
13 9.48762024720748
14 4.36850646150769
15 14.1110439498734
16 5.40141287871418
17 12.2509205977234
18 6.95000904188616
19 8.59379959510972
20 9.65893666538791

Total number of rows: 62976

Table truncated, full table size 1397 Kbytes.

Supplementary file Size Download File type/resource
GSM1562181_US90203617_253124110010_S01_GE1_107_Sep09_1_4.txt.gz 12.5 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap