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Sample GSM1162178 Query DataSets for GSM1162178
Status Public on Aug 13, 2014
Title wt_0909
Sample type RNA
Source name wt_E12.5 pooled fore- and hindlimb tissue
Organism Mus musculus
Characteristics strain: C57BL/6
genotype/variation: wildtype
tissue: pooled fore- and hindlimb tissue
age: E12.5
Treatment protocol Tissue was stored at -80°C until RNA preparation
Growth protocol murine embryonic fore- and hindlimb tissue was dissected at stage E12.5
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the RNeasy Kit (Qiagen) according to the manufacturer's instructions, following homogenization using a PT1300 D polytron (Kinematica). DNA was hydrolyzed using the RNAse-free DNAse Kit (Qiagen). Samples from embryonic limbs (E12.5) of the same genotype (wildtype and SHOX transgene) were pooled.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Hybridization protocol Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
Scan protocol Affymetrix GeneArray Scanner3000
Description Gene expression data from murine wildtype pooled fore- and hindlimbs at stage E12.5
Data processing The data were analyzed with a commercial software called JMP Genomics, version 4, from SAS. Gene expression profiling was performed using arrays of mouse430_2 -type from Affymetrix. A Custom CDF Version 13 with entrez based gene definitions was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization.
Submission date Jun 13, 2013
Last update date Aug 13, 2014
Contact name Carsten Sticht
Organization name University Heidelberg
Department ZMF
Street address Theodor-Kutzer-Ufer
City Mannheim
ZIP/Postal code 68169
Country Germany
Platform ID GPL14661
Series (1)
GSE47902 Expression profiles of wildtype and SHOX transgenic embryonic mouse limbs

Data table header descriptions
VALUE Quantile normalized intensity

Data table
100009600_at 7.10996094
100012_at 6.04088246
100017_at 7.86132813
100019_at 8.91780599
100034251_at 7.0690696
100036521_at 8.21892756
100037258_at 8.62998047
100037278_at 7.50896662
100038570_at 7.04915365
100038635_at 6.17666903
100038680_at 6.5139974
100038887_at 12.9441817
100038959_at 7.81911892
100039026_at 7.44750977
100039027_at 6.05151367
100039094_at 7.17646484
100039235_at 7.32460938
100039282_at 5.98808594
100039284_at 8.37526634
100039307_at 7.06164551

Total number of rows: 16556

Table truncated, full table size 327 Kbytes.

Supplementary file Size Download File type/resource
GSM1162178_Rappold_010909_E12.5-WT_Mou430_2.CEL.gz 6.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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