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Sample GSM1818081 Query DataSets for GSM1818081
Status Public on Aug 19, 2015
Title spnE-_2-4h_rep5
Sample type RNA
 
Channel 1
Source name 2-4h spn-Ehls-03987/spn-E1 embryos
Organism Drosophila melanogaster
Characteristics developmental stage: embryos 2-4h
allele: spn-Ehls-03987/spn-E1
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 1.095257931
535513_0003_0027 -0.404099239
535513_0003_0029 0.129029679
535513_0003_0031 0.094700946
535513_0003_0033 -0.550548925
535513_0003_0035 -0.693376008
535513_0003_0037 -0.475526555
535513_0003_0039 0.100767392
535513_0003_0041 0.737121574
535513_0003_0043 0.539996748
535513_0003_0045 -1.919715455
535513_0003_0047 -0.055573711
535513_0003_0049 0.319807298
535513_0003_0051 -0.6885772
535513_0003_0053 0.006275736
535513_0003_0055 -0.258629507
535513_0003_0057 -1.314597053
535513_0003_0059 -0.316456837
535513_0003_0061 -0.234543923
535513_0003_0063 -1.239636986

Total number of rows: 137096

Table truncated, full table size 3940 Kbytes.




Supplementary file Size Download File type/resource
GSM1818081_463140_A11_1_.probe.txt.gz 2.7 Mb (ftp)(http) TXT
Processed data included within Sample table

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