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Sample GSM162266 Query DataSets for GSM162266
Status Public on Jul 01, 2007
Title Wild type 2 with array type maize from Affymetrix
Sample type RNA
 
Source name wildtype2
Organism Zea mays
Characteristics Zea mays (f252) - dev.stage (Boyes et al. Plant Cell 2001):35 days after pollinisation
Treatment protocol no treatment
Growth protocol seed - Grown in green house in Grodent substrate with 16 h day light plus artificial lighting and 8 h night with a temperature of 24degreeC/17degreeC. Humidity was not controlled but was approximately 70%/80%.
Extracted molecule total RNA
Extraction protocol wildtype2:20ug.
Label Biotin
Label protocol labelling Biotin direct, amplification=yes, RNAa 20 ug.
 
Hybridization protocol labelled extract quantity: 15ug
Scan protocol GCOS, Biotin:pmt voltage 570nm,650V,laser power 1
Description The Brittle2 (Bt2) gene is one of three genes in the maize genome coding for the small subunit of ADP-glucose pyro-phosphorylase (AGPase), a key enzyme in starch synthesis. It is predominantly expressed in the developing endosperm. The bt2 mutant is characterised by collapsed, brittle kernels on mature ears. During kernel development a strong increase in soluble sugars (mainly sucrose) and a strong reduction in starch content has been observed. The goal of the present study was to compare the transcriptome between wildtype and bt2 kernels (bt2-H2328 allele) at mid-development (35 days after pollination). The main biological question was, whether the block in starch synthesis caused the transcriptional induction of other metabolic pathways to allow an alternative use of the excess sucrose.
Data processing The data were normalized with the gcrma algorithm (Irizarry et al., 2003), available in the Bioconductor package (Gentleman and Carey, 2002).
 
Submission date Feb 14, 2007
Last update date Feb 21, 2007
Contact name sandrine balzergue
Organization name INRA
Lab IRHS
Street address Rue G. Morel
City Beaucouze
ZIP/Postal code 49000
Country France
 
Platform ID GPL4032
Series (1)
GSE7030 Phenotypic and molecular characterisation of a novel Bt2 allele in maize

Data table header descriptions
ID_REF
VALUE normalized_intensity

Data table
ID_REF VALUE
AFFX-BioB-3_at 7.23
AFFX-BioB-5_at 7.58
AFFX-BioB-M_at 7.75
AFFX-BioC-3_at 9.59
AFFX-BioC-5_at 8.65
AFFX-BioDn-3_at 11.88
AFFX-BioDn-5_at 10.4
AFFX-CreX-3_at 14.26
AFFX-CreX-5_at 14.15
AFFX-DapX-3_at 9.56
AFFX-DapX-5_at 7.67
AFFX-DapX-M_at 9.08
AFFX-LysX-3_at 7
AFFX-LysX-5_at 3.62
AFFX-LysX-M_at 3.39
AFFX-PheX-3_at 5.89
AFFX-PheX-5_at 5.12
AFFX-PheX-M_at 5.43
AFFX-r2-Bs-dap-3_at 10.08
AFFX-r2-Bs-dap-5_at 7.95

Total number of rows: 17734

Table truncated, full table size 380 Kbytes.




Supplementary file Size Download File type/resource
GSM162266.CEL.gz 2.1 Mb (ftp)(http) CEL
Raw data provided as supplementary file

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