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Sample GSM1386543 Query DataSets for GSM1386543
Status Public on Jul 31, 2014
Title High 9
Sample type RNA
 
Source name embryo stage 12 to 46
Organism Xenopus tropicalis
Characteristics developmental stage: embryo stage 12 to 46
agent: sodium arsenate
dose: High
Growth protocol N/A
Extracted molecule total RNA
Extraction protocol RNA was extracted using the E.Z.N.A total RNA kit (VWR International, Mississauga, ON, CA). RNA quantity was measured using the NanoDrop ND2000 (Thermo Scientific) prior to DNase treatment for real-time PCR and RNA integrity was evaluated according to Agilent 2100 Bioanalyzer protocol (Agilent, Mississauga, ON, CAN).
Label Cy3
Label protocol Agilent one color protocol for Cy3
 
Hybridization protocol Silurana tropicalis microarrays were manufactured with Agilent Sure Print Technology in Fall 2011. RNA labeling, microarray hybridization, and microarray analysis were performed according to Agilent’s One-Color Microarray-Gene Based Expression Analysis protocol (May 2010) using an Agilent kit (Agilent, Mississauga, ON, CAN). After hybridization for 17 hours, microarray slides were washed and scanned using Agilent Technologies DNA Microarray Scanner with Surescan High-Resolution Technology and raw expression data along with tif images were extracted by the Feature Extraction Software 10.7.3.1.
Scan protocol After hybridization for 17 hours, microarray slides were washed and scanned using Agilent Technologies DNA Microarray Scanner with Surescan High-Resolution Technology and raw expression data along with tif images were extracted by the Feature Extraction Software 10.7.3.1.
Data processing Normalized signal intensity provided here is LOESS Normalization (JMP Genomics, V6.0).
 
Submission date May 14, 2014
Last update date Jul 31, 2014
Contact name Christopher Joseph Martyniuk
E-mail(s) CMARTYN@UFL.EDU
Organization name UF
Department Physiological Sciences
Street address CEHT Mowry Road
City Gainesville
State/province FL
ZIP/Postal code 32611
Country USA
 
Platform ID GPL15626
Series (1)
GSE57673 The effects of arsenic on Silurana tropicalis embryos

Data table header descriptions
ID_REF
VALUE Normalized signal intensity; data filtered at 2.5 for analysis

Data table
ID_REF VALUE
1 12.2618878
2 2.5
3 2.5
4 2.5
5 2.5
6 2.5
7 2.5
8 2.5
9 2.5
10 2.5
11 2.5
12 6.56906195
13 2.5
14 2.5
15 2.5
16 10.5610387
17 6.93172549
18 7.99131227
19 9.36509538
20 6.92951455

Total number of rows: 45220

Table truncated, full table size 694 Kbytes.




Supplementary file Size Download File type/resource
GSM1386543_US10173810_253584310026_S02_GE1_107_Sep09_1_3.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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