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Sample GSM435257 Query DataSets for GSM435257
Status Public on Feb 02, 2013
Title H37M_rep3_Array4
Sample type RNA
 
Source name whole body, 7-day-old adult, female
Organism Drosophila pseudoobscura pseudoobscura x Drosophila pseudoobscura bogotana
Characteristics tissue: whole body
gender: Male
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 0.667909043
GA10247_1 1.280505476
GA10310_1PS 3.418942696
GA10310_1PER 3.63486178
GA10395_3 0.641803149
GA10395_4 0.779870077
GA10397_3 0.435845993
GA10397_1 0.5016074
GA10397_2 0.422764303
GA10397_4 0.505748879
GA10423_1PER 0.539469903
GA10423_1PS 0.62095475
GA10493_1 1.142361959
GA10493_3 0.946807976
GA10493_4 1.110762624
GA10493_2 0.976952957
GA10495_4 0.621908969
GA10495_1 0.898801756
GA10495_2 0.714278219
GA10497_4 0.438014788

Total number of rows: 25699

Table truncated, full table size 580 Kbytes.




Supplementary file Size Download File type/resource
GSM435257.gpr.gz 1.8 Mb (ftp)(http) GPR
Processed data included within Sample table

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