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Sample GSM393529 Query DataSets for GSM393529
Status Public on Jun 02, 2009
Title gra2-D, biological rep3
Sample type RNA
Source name gra2-D mutant
Organism Arabidopsis thaliana
Characteristics ecotype: Col-0
tissue: vegetative part
age: stage 1.03
genotype: gra2-D
Growth protocol plant were grown on MS medium under 16 h light/ 8 h dark cycle at 22°C
Extracted molecule total RNA
Extraction protocol RNeasy plant mini kit (Qiagen) , according to manufacturer protocol
Label biotin
Label protocol Standard affymetrix protocol
Hybridization protocol Standard affymetrix protocol
Scan protocol Standard affymetrix protocol
Description gra2-D mutant, vegetative part of seedlings at stage 1.03
Data processing Expression data were processed using RMA (background correction, normalization and summarization) in BioConductor (Gentleman et al. 2004; Irizarry et al. 2003a; 2003b). An alternative CDF (tinesath1cdf) was used, where each probe is assigned uniquely to one transcript and is excluded if it aligns to a different transcript with 24 or more perfect matches (Casneuf et al. 2007;
Submission date Apr 17, 2009
Last update date Jun 02, 2009
Contact name Nathalie Gonzalez
Phone +32 (0)9 331 39 56
Organization name VIB
Department Plant System Biology
Lab System Biology of Yield
Street address Technologiepark 927
City Gent
ZIP/Postal code 9052
Country Belgium
Platform ID GPL8455
Series (2)
GSE15722 Chromosomal duplication in the grandifolia-D mutants of Arabidopsis thaliana, expression data
GSE15726 Chromosomal duplication in the grandifolia-D mutants of Arabidopsis thaliana

Data table header descriptions
VALUE Absolute expression values log2 transformed in the RMA procedure

Data table
AT1G01010 4.747303613
AT1G01030 4.614770554
AT1G01040 7.142271061
AT1G01050 9.781676154
AT1G01060 6.33605707
AT1G01070 4.788224824
AT1G01080 9.159530875
AT1G01090 11.62331684
AT1G01100 11.45024152
AT1G01110 4.468012903
AT1G01120 9.871093481
AT1G01130 5.044255018
AT1G01140 9.085867342
AT1G01150 3.277502805
AT1G01160 7.896035077
AT1G01170 10.62938521
AT1G01180 3.887764165
AT1G01190 4.588229319
AT1G01200 4.512927808
AT1G01220 7.791902458

Total number of rows: 20777

Table truncated, full table size 444 Kbytes.

Supplementary file Size Download File type/resource
GSM393529.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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