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Sample GSM1162179 Query DataSets for GSM1162179
Status Public on Aug 13, 2014
Title wt_0309
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
ID_REF
VALUE Quantile normalized intensity

Data table
ID_REF VALUE
100009600_at 7.27392578
100012_at 6.03808594
100017_at 8.08531605
100019_at 9.14404297
100034251_at 7.26464844
100036521_at 8.15704901
100037258_at 8.22802734
100037278_at 7.78213778
100038570_at 6.9155816
100038635_at 6.21058239
100038680_at 6.87760417
100038887_at 12.7465049
100038959_at 8.06510417
100039026_at 7.47827148
100039027_at 5.83789063
100039094_at 7.13671875
100039235_at 7.24765625
100039282_at 5.93632813
100039284_at 8.71013849
100039307_at 7.01220703

Total number of rows: 16556

Table truncated, full table size 327 Kbytes.




Supplementary file Size Download File type/resource
GSM1162179_Rappold_130309_7_E12.5-WT-limb_Mou430_2.CEL.gz 6.0 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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