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Sample GSM1818068 Query DataSets for GSM1818068
Status Public on Aug 19, 2015
Title aub-_2-4h_rep4
Sample type RNA
 
Channel 1
Source name 2-4h aubHN2/aubQC42 embryos
Organism Drosophila melanogaster
Characteristics developmental stage: embryos 2-4h
allele: aubHN2/aubQC42
Extracted molecule total RNA
Extraction protocol RNA was prepared with Trizol (Invitrogen) from 0-2 h and 2-4 h-embryos from wild-type, aubHN2/aubQC42 or spn-Ehls-03987/spn-E1 females crossed with wild-type males.
Label Cy5
Label protocol Experimental samples were labelled with Cy5 and the common reference sample (made by pooling equimolar amounts of RNA from all 18 experimental samples) was labelled with Cy3.
 
Channel 2
Source name equimolar mix of all 18 samples
Organism Drosophila melanogaster
Characteristics developmental stage: pooled all stages
Extracted molecule total RNA
Extraction protocol RNA was prepared with Trizol (Invitrogen) from 0-2 h and 2-4 h-embryos from wild-type, aubHN2/aubQC42 or spn-Ehls-03987/spn-E1 females crossed with wild-type males.
Label Cy3
Label protocol Experimental samples were labelled with Cy5 and the common reference sample (made by pooling equimolar amounts of RNA from all 18 experimental samples) was labelled with Cy3.
 
 
Hybridization protocol Samples were hybridized to Nimblegen Drosophila melanogaster 12 x 135 K microarrays
Scan protocol Microarrays were scanned in Cy3 and Cy5 channels at 1 µm resolution using Innoscan900 scanner (Innopsys) and variable photomultiplier tube (PMT) settings to obtain maximal signal intensities. Nimblescan v2.5 software (Roche Nimblegen) was used for feature extraction
Data processing The data were normalized using the VSN (Variance Stabilizing Normalization) method. Differentially expressed probes were identified using LIMMA and FDR (False Discovery Rate) set to 0.1%.
 
Submission date Jul 10, 2015
Last update date Aug 19, 2015
Contact name Simonelig Martine
E-mail(s) martine.simonelig@igh.cnrs.fr
Organization name Institut de Genetique Humaine - CNRS
Department Genetics and Development
Lab mRNA Regulation and Development
Street address 141, rue de la Cardonille
City MONTPELLIER
ZIP/Postal code 34396
Country France
 
Platform ID GPL20683
Series (2)
GSE70775 Transcriptomic analysis of wild-type, spn-E and aub mutant 0-2h- and 2-4h-embryos
GSE70778 Aubergine iCLIP and expression

Data table header descriptions
ID_REF
VALUE Normalized data set (log[2] ratio of experiment / common reference)

Data table
ID_REF VALUE
535513_0003_0025 0.183113316
535513_0003_0027 0.654631222
535513_0003_0029 -1.272013194
535513_0003_0031 0.14485612
535513_0003_0033 0.083813168
535513_0003_0035 -0.710903917
535513_0003_0037 -0.251111273
535513_0003_0039 -0.255059536
535513_0003_0041 -0.270696456
535513_0003_0043 -0.330529579
535513_0003_0045 -1.998663111
535513_0003_0047 0.319850012
535513_0003_0049 0.358680306
535513_0003_0051 0.30095632
535513_0003_0053 -0.104732319
535513_0003_0055 -0.879501066
535513_0003_0057 -0.496103068
535513_0003_0059 0.545839061
535513_0003_0061 -0.085092107
535513_0003_0063 -0.817929562

Total number of rows: 137096

Table truncated, full table size 3932 Kbytes.




Supplementary file Size Download File type/resource
GSM1818068_463140_A04_1_.probe.txt.gz 2.7 Mb (ftp)(http) TXT
Processed data included within Sample table

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