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Sample GSM393525 Query DataSets for GSM393525
Status Public on Jun 02, 2009
Title gra1-D, biological rep2
Sample type RNA
Source name gra1-D mutant
Organism Arabidopsis thaliana
Characteristics ecotype: Col-0
tissue: vegetative part
age: stage 1.03
genotype: gra1-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 gra1-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 4.376832181
AT1G01030 4.567879956
AT1G01040 7.105484714
AT1G01050 9.716669262
AT1G01060 6.962141734
AT1G01070 4.863178481
AT1G01080 9.324875118
AT1G01090 11.53272241
AT1G01100 11.75051754
AT1G01110 4.601356957
AT1G01120 9.887178001
AT1G01130 4.668311352
AT1G01140 9.062354107
AT1G01150 3.176673049
AT1G01160 7.459583142
AT1G01170 10.68790373
AT1G01180 3.78681236
AT1G01190 4.474079317
AT1G01200 4.31100451
AT1G01220 7.680006534

Total number of rows: 20777

Table truncated, full table size 444 Kbytes.

Supplementary file Size Download File type/resource
GSM393525.CEL.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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