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Sample GSM460041 Query DataSets for GSM460041
Status Public on Sep 10, 2011
Title SKL3J_R3
Sample type RNA
 
Source name SKL3J_R3
Organism Medicago truncatula
Characteristics line: Sickle
age: 6day
Treatment protocol 3J - time course study - pathogen infection, ralstonia solanacearum gmi 1000 strain: quantity 1e+07cfu/ml time 72h. Inoculation was performed as described (Vailleau et al., 2007). Bacterial concentration was set at 107cfu/ml for the inoculation.
Growth protocol root - Seeds were surface sterilized, vernalized and germinated according to Boisson-Dernier (Boisson-Dernier et al., 2001). 24h germinating seed were grown on Fahraeus medium (Fahraeus, 1957) covered with filter paper in square Petri dishes at 25°C (day/night 12h). Roots kept in the dark with a mask on the Petri dish made of kraft paper and aluminium.
Extracted molecule total RNA
Extraction protocol SKL3J_R3:8.6ug.
Label Biotin
Label protocol labelling Biotin direct, amplification=yes, cRNA 20 ug.
 
Hybridization protocol labelled extract quantity: 15ug
Scan protocol GCOS, Biotin:pmt voltage 570nm,650V,laser power 1
Description medicago truncatula mutant (sickle a17 mutant) - age: 6day
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 Oct 08, 2009
Last update date Sep 10, 2011
Contact name sandrine balzergue
Organization name INRA
Lab IRHS
Street address Rue G. Morel
City Beaucouze
ZIP/Postal code 49000
Country France
 
Platform ID GPL4652
Series (1)
GSE18473 Transcriptom analysis of the interaction Medicago truncatula – Ralstonia solanacearum

Data table header descriptions
ID_REF ID number
VALUE Normalized data by GCRMA

Data table
ID_REF VALUE
AFFX-BioB-3_at 10.60326721
AFFX-BioB-5_at 10.54927422
AFFX-BioB-M_at 11.03800239
AFFX-BioC-3_at 12.11138739
AFFX-BioC-5_at 11.77831704
AFFX-BioDn-3_at 13.57759201
AFFX-BioDn-5_at 13.06278495
AFFX-CreX-3_at 15.09328578
AFFX-CreX-5_at 15.01563917
AFFX-DapX-3_at 10.42127933
AFFX-DapX-5_at 8.631210419
AFFX-DapX-M_at 9.787768813
AFFX-LysX-3_at 7.331703184
AFFX-LysX-5_at 5.016882475
AFFX-LysX-M_at 6.035970415
AFFX-Msa-actin-3_at 9.480372698
AFFX-Msa-actin-5_at 2.863139817
AFFX-Msa-actin-M_at 9.330527855
AFFX-Msa-gapc-3_at 12.48614243
AFFX-Msa-gapc-5_at 13.11946278

Total number of rows: 61278

Table truncated, full table size 1780 Kbytes.




Supplementary file Size Download File type/resource
GSM460041.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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