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Sample GSM435246 Query DataSets for GSM435246
Status Public on Feb 02, 2013
Title H17F_rep1_Array3
Sample type RNA
 
Source name whole body, 7-day-old adult, female
Organism Drosophila pseudoobscura x Drosophila persimilis
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 persimilis (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 0.751877069
GA10247_1 1.389798961
GA10310_1PS 4.030938475
GA10310_1PER 4.514825934
GA10395_3 0.307295304
GA10395_4 0.328471216
GA10397_3 0.695204228
GA10397_1 0.707747132
GA10397_2 0.662224615
GA10397_4 0.734675186
GA10423_1PER 0.473783011
GA10423_1PS 0.506245454
GA10493_1 1.876746918
GA10493_3 1.723504211
GA10493_4 1.865925095
GA10493_2 1.621523562
GA10495_4 1.251510718
GA10495_1 1.7576132
GA10495_2 1.384753551
GA10497_4 0.512146516

Total number of rows: 25699

Table truncated, full table size 580 Kbytes.




Supplementary file Size Download File type/resource
GSM435246.gpr.gz 1.8 Mb (ftp)(http) GPR
Processed data included within Sample table

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