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Sample GSM435260 Query DataSets for GSM435260
Status Public on Feb 02, 2013
Title H37F_rep3_Array3
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 0.651729101
GA10247_1 1.454096954
GA10310_1PS 4.344824085
GA10310_1PER 4.826894817
GA10395_3 0.258422903
GA10395_4 0.273728405
GA10397_3 0.844611827
GA10397_1 0.834325978
GA10397_2 0.776817571
GA10397_4 0.843034154
GA10423_1PER 0.43740821
GA10423_1PS 0.497811243
GA10493_1 2.162802693
GA10493_3 1.991449834
GA10493_4 2.211913684
GA10493_2 1.926637817
GA10495_4 1.114215727
GA10495_1 1.611572825
GA10495_2 1.201144091
GA10497_4 0.478634107

Total number of rows: 25699

Table truncated, full table size 580 Kbytes.




Supplementary file Size Download File type/resource
GSM435260.gpr.gz 1.8 Mb (ftp)(http) GPR
Processed data included within Sample table

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