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Sample GSM744069 Query DataSets for GSM744069
Status Public on Jun 01, 2013
Title CA Replicate1 8 Hour Male
Sample type RNA
 
Channel 1
Source name Male zebrafish liver tissue
Organism Danio rerio
Characteristics gender: male
sample type: Chloroaniline-treated liver tissue
tissue: liver
treatment: Chloroaniline
time: 8h
Treatment protocol Male zebrafish were exposed to 30 µg/L chloroaniline for 8, 24, 48, and 96 hours at room temperature.
Growth protocol Zebrafish were maintained at room temperature (26°C + 1°C)
Extracted molecule total RNA
Extraction protocol Total RNA of tissue samples were extracted using Trizol reagent (Invitrogen) according to the manufacturers instructions.
Label Cy5
Label protocol For fluorescence labeling of cDNAs, 10 µg of total RNA from the reference and experimental samples were reverse transcribed in the presence of Cy3-dUTP and Cy5-dUTP (Amersham Inc.), respectively. Reference RNA was obtained by pooling equal amount of male and female total RNA extracted from liver tissues of wild-type zebrafish. Labeled cDNA were concentrated, and resuspended in DIG EasyHyb (Roche Applied Science) buffer for hybridization.
 
Channel 2
Source name Male and female zebrafish liver tissue
Organism Danio rerio
Characteristics gender: male and female
tissue: liver
treatment: untreated
sample type: Reference RNA was obtained by pooling equal amount of male and female total RNA extracted from liver tissues of wild-type zebrafish.
Treatment protocol Male zebrafish were exposed to 30 µg/L chloroaniline for 8, 24, 48, and 96 hours at room temperature.
Growth protocol Zebrafish were maintained at room temperature (26°C + 1°C)
Extracted molecule total RNA
Extraction protocol Total RNA of tissue samples were extracted using Trizol reagent (Invitrogen) according to the manufacturers instructions.
Label Cy3
Label protocol For fluorescence labeling of cDNAs, 10 µg of total RNA from the reference and experimental samples were reverse transcribed in the presence of Cy3-dUTP and Cy5-dUTP (Amersham Inc.), respectively. Reference RNA was obtained by pooling equal amount of male and female total RNA extracted from liver tissues of wild-type zebrafish. Labeled cDNA were concentrated, and resuspended in DIG EasyHyb (Roche Applied Science) buffer for hybridization.
 
 
Hybridization protocol Reference RNA (labelled with Cy3) is co-hybridized with RNA samples extracted either from treated or control fish (labelled with Cy5) on a glass array spotted with Zf_16.5K_oligo_COMP_v3Apx zebrafish oligo probes.
Scan protocol The arrays were scanned using the GenePix 4000B microarray scanner (Axon Instruments, USA) and the generated images with their fluorescence signal intensities were analyzed using GenePix Pro 4.0 image analysis software (Axon Instruments, USA).
Description Biological replicate 1 of 3: chloroaniline-treated at 8 Hr
Data processing The data were global median normalized. Normalized ratio of means defined by CH1/CH2
 
Submission date Jun 17, 2011
Last update date Jun 01, 2013
Contact name Choong Yong UNG
E-mail(s) matucy@nus.edu.sg
Organization name National University of Singapore
Department Department of Biological Sciences
Street address 14 Science Drive 4
City Singapore
ZIP/Postal code 117543
Country Singapore
 
Platform ID GPL2715
Series (1)
GSE30055 Toxicogenomics and phenotypic characterization of adult male zebrafish liver treated with chloroaniline

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio of means defined by CH1/CH2

Data table
ID_REF VALUE
5269516 -0.808164191
5269517 -0.70288552
5269518 1.254020962
5269519 -0.156668016
5269520 -0.687197535
5269521 0.909267333
5269522 -0.227863769
5269523 0.217398514
5269524 -0.044915535
5269525 -0.205143972
5269526 -0.593958505
5269527 0.438707993
5269528 -0.368161656
5269529 -0.844544608
5269530 -0.198854182
5269531 -0.303484489
5269532 -0.221845381
5269533 -0.116211161
5269534 0.217841559
5269535 -0.569859444

Total number of rows: 16512

Table truncated, full table size 294 Kbytes.




Supplementary file Size Download File type/resource
GSM744069_CA1_8h_M.txt.gz 753.5 Kb (ftp)(http) TXT
Processed data included within Sample table

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