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Sample GSM435266 Query DataSets for GSM435266
Status Public on Feb 02, 2013
Title H47F_rep3_Array2
Sample type RNA
 
Source name whole body, 7-day-old adult, male
Organism Drosophila pseudoobscura bogotana x Drosophila pseudoobscura pseudoobscura
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 (paternal) and Drosophila pseudoobscura bogotana (maternal)
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 0.746662353
GA10247_1 1.61986748
GA10310_1PS 4.387123067
GA10310_1PER 4.604239696
GA10395_3 0.257914606
GA10395_4 0.288304857
GA10397_3 0.751161503
GA10397_1 0.840129075
GA10397_2 0.707511561
GA10397_4 0.877648369
GA10423_1PER 0.61109633
GA10423_1PS 0.682155023
GA10493_1 2.078424918
GA10493_3 1.889906713
GA10493_4 2.103775512
GA10493_2 1.927305806
GA10495_4 1.291345226
GA10495_1 1.866696728
GA10495_2 1.220340532
GA10497_4 0.514594114

Total number of rows: 25699

Table truncated, full table size 580 Kbytes.




Supplementary file Size Download File type/resource
GSM435266.gpr.gz 1.8 Mb (ftp)(http) GPR
Processed data included within Sample table

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