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Sample GSM435258 Query DataSets for GSM435258
Status Public on Feb 02, 2013
Title H37F_rep1_Array1
Sample type RNA
 
Source name whole body, 7-day-old adult, male
Organism Drosophila pseudoobscura pseudoobscura x Drosophila pseudoobscura bogotana
Characteristics tissue: whole body
gender: Female
age: 7-day-old
Growth protocol Flies were reared on cornmeal/yeast medium and maintained at 20°C with a 12:12-h light/dark cycle.
Extracted molecule total RNA
Extraction protocol Flies were instantly frozen in liquid nitrogen and stored in TRIZOL (Invitrogen) at -80°C. RNA was isolated using TRIZOL from at least 100 individuals. RNA quantity and quality were separately measured on a NanoDrop spectrophotometer (Thermo Scientific) and a Bioanalyzer 2100 (Agilent Technologies). High-quality samples (260/280>1.85; 260/230>1.7) further purified using the RNeasy kit (Qiagen).
Label Cy3
Label protocol Fluorescent cRNA was synthesized from 200 ng of total RNA using Agilent’s low-RNA input fluorescent linear amplification kit following manufacturer's protocols (Agilent Technologies). Labelled RNAs were cleaned with RNeasy columns (Qiagen), and cRNA yields were quantified on a NanoDrop spectrophotometer. Two separate labeling reactions per sample were pooled and hybridized to the arrays following Agilent’s protocols.
 
Hybridization protocol Agilent’s protocols
Scan protocol Agilent’s protocols
Description Hybrids of Drosophila pseudoobscura (maternal) and Drosophila pseudoobscura bogotana (paternal)
Data processing Performed in HDBStat: data is normalized by flagging out bad spots, filtering unexpressed genes (average raw intensity across all the samples <50), negative and positive Agilent controls, and then normalized with Chip Mean and log2 transformation.
 
Submission date Jul 31, 2009
Last update date Feb 02, 2013
Contact name Carlos Alberto Machado
E-mail(s) zjiang@umd.edu
Organization name University of Maryland
Department department of biology
Street address 1210 BPS
City college park
State/province MD
ZIP/Postal code 20742
Country USA
 
Platform ID GPL8884
Series (1)
GSE17452 Aberrant gene expression in Drosophila hybrids supporting faster-male evolution

Data table header descriptions
ID_REF
VALUE normalized signal

Data table
ID_REF VALUE
GA10247_4 0.766679088
GA10247_1 1.626463859
GA10310_1PS 4.433037294
GA10310_1PER 4.615451457
GA10395_3 0.28107863
GA10395_4 0.323508399
GA10397_3 0.728008491
GA10397_1 0.797109238
GA10397_2 0.676802293
GA10397_4 0.817595034
GA10423_1PER 0.631237858
GA10423_1PS 0.704417536
GA10493_1 1.974931454
GA10493_3 1.759760723
GA10493_4 1.950070664
GA10493_2 1.700774492
GA10495_4 1.368769389
GA10495_1 1.870691617
GA10495_2 1.362000111
GA10497_4 0.500364912

Total number of rows: 25699

Table truncated, full table size 580 Kbytes.




Supplementary file Size Download File type/resource
GSM435258.gpr.gz 1.8 Mb (ftp)(http) GPR
Processed data included within Sample table

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