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Sample GSM393527 Query DataSets for GSM393527
Status Public on Jun 02, 2009
Title gra2-D, biological rep1
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 4.828078821
AT1G01030 4.410922711
AT1G01040 7.32958009
AT1G01050 9.878726299
AT1G01060 7.538669944
AT1G01070 5.131513655
AT1G01080 9.242054
AT1G01090 11.56111595
AT1G01100 11.64953788
AT1G01110 4.800126576
AT1G01120 10.00719711
AT1G01130 4.659940462
AT1G01140 9.045318195
AT1G01150 3.162215798
AT1G01160 7.724802902
AT1G01170 10.52784132
AT1G01180 3.898261453
AT1G01190 4.5360252
AT1G01200 4.454641284
AT1G01220 7.621473068

Total number of rows: 20777

Table truncated, full table size 443 Kbytes.

Supplementary file Size Download File type/resource
GSM393527.CEL.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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