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Sample GSM393532 Query DataSets for GSM393532
Status Public on Jun 02, 2009
Title gra3-D, biological rep3
Sample type RNA
Source name gra3-D mutant
Organism Arabidopsis thaliana
Characteristics ecotype: Col-0
tissue: vegetative part
age: stage 1.03
genotype: gra3-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 gra3-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 4.127849594
AT1G01030 4.855446588
AT1G01040 7.198509321
AT1G01050 9.765032812
AT1G01060 7.449032646
AT1G01070 5.599299409
AT1G01080 9.3037763
AT1G01090 11.57530708
AT1G01100 11.60233
AT1G01110 4.697743228
AT1G01120 9.373861008
AT1G01130 4.517274123
AT1G01140 9.214063102
AT1G01150 3.123085112
AT1G01160 7.592957311
AT1G01170 10.79283392
AT1G01180 4.005042062
AT1G01190 4.420264638
AT1G01200 4.542166216
AT1G01220 7.855974003

Total number of rows: 20777

Table truncated, full table size 444 Kbytes.

Supplementary file Size Download File type/resource
GSM393532.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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