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Sample GSM1832838 Query DataSets for GSM1832838
Status Public on Jul 16, 2018
Title 6-48 control_18240
Sample type RNA
 
Source name embryos
Organism Danio rerio
Characteristics developemental stage: 6 hpf embryos
exposed to: none (control)
Treatment protocol 6 hpf embryos were treated with ochratoxin A (0.5 µM) till 48 hpf.
Growth protocol zebrafish embryos were selected at 6 hph with normal development.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted by Trizol® Reagent (Invitrogen, USA) according to the instruction manual. RNA purified was quantified at OD260nm by using a ND-1000 spectrophotometer (Nanodrop Technology, USA) and qualitated by using a Bioanalyzer 2100 (Agilent Technology, USA) with RNA 6000 labchip kit (Agilent Technologies, USA).
Label Cy3
Label protocol 0.2 mg of total RNA was amplified by a low Input Quick-Amp Labeling kit (Agilent Technologies, USA) and labeled with Vy3 (CyDye, Agilent Technologies, USA) during the in vitro transcription process.
 
Hybridization protocol 1.65 mg of Cy3-labled cRNA is then pooled and hybridized to Agilent Zebrafish V3 array 4´44K Microarray (Agilent Technologies, USA) at 65℃ for 17h.
Scan protocol After washing and drying by nitrogen fun blowing, microarrays are scanned with an Agilent microarray scanner (Agilent Technologies, USA) at 535nm for Cy3.
Data processing The scanned images were analyzed with Feature Extraction 10.5.1.1 Software (Agilent Technologies, USA), an image analysis and normalization software is used to quantify signal and background intensity for each feature.
 
Submission date Jul 25, 2015
Last update date Jul 16, 2018
Contact name Ting-Shuan Wu
E-mail(s) ab118tw@gmail.com
Organization name ntu
Street address 5F ,No 1, Sec 1, Jen-Ai Rd
City Taipei
ZIP/Postal code 100
Country Taiwan
 
Platform ID GPL14688
Series (1)
GSE71345 Agilent zebrafish V3 array 4´44K microarray-Ochratoxin A treated with 6-48 hpf zebrafish embryos

Data table header descriptions
ID_REF
VALUE normalized

Data table
ID_REF VALUE
1 1.61E+04
2 2.65E+00
3 2.68E+00
4 2.71E+00
5 2.73E+00
6 6.98E+00
7 2.78E+00
8 2.80E+00
9 2.82E+00
10 2.84E+00
11 2.85E+00
12 6.53E+02
13 8.99E+01
14 8.44E+01
15 2.38E+01
16 2.03E+03
17 1.17E+03
18 3.99E+01
19 1.63E+03
20 6.14E+04

Total number of rows: 45220

Table truncated, full table size 651 Kbytes.




Supplementary file Size Download File type/resource
GSM1832838_18240_252643711007_4.txt.gz 9.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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