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Sample GSM393523 Query DataSets for GSM393523
Status Public on Jun 02, 2009
Title wild type, biological rep3
Sample type RNA
Source name Wild type
Organism Arabidopsis thaliana
Characteristics ecotype: Col-0
tissue: vegetative part
age: stage 1.03
genotype: WT
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 Wild type, 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 4.387853575
AT1G01030 4.684344451
AT1G01040 6.950047107
AT1G01050 9.779970958
AT1G01060 7.376873954
AT1G01070 5.248399693
AT1G01080 9.450409889
AT1G01090 11.8607853
AT1G01100 11.55532254
AT1G01110 4.49128754
AT1G01120 9.424286207
AT1G01130 4.577561549
AT1G01140 9.313100668
AT1G01150 3.29051055
AT1G01160 7.666087159
AT1G01170 10.81634332
AT1G01180 3.944123658
AT1G01190 4.712377158
AT1G01200 4.639842323
AT1G01220 8.018097862

Total number of rows: 20777

Table truncated, full table size 444 Kbytes.

Supplementary file Size Download File type/resource
GSM393523.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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