GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM174887 Query DataSets for GSM174887
Status Public on Jan 01, 2008
Title D FR13 3 dpi rep 2 with array type rice from Affymetrix
Sample type RNA
Source name D_FR13_3dpi_rep2
Organism Oryza sativa
Characteristics Oriza sativa - dev.stage (Boyes et al. Plant Cell 2001):last emerged leaf (3d leaf)
Treatment protocol Name:infection_rice_pathogen - environmental treatment - pathogen infection,gelatine 0.5% :. Plants were inoculated with Magnaporthe grisea spore suspension as described in Berruyer et al, TAG 2005. Spores were resuspended in gelatine 0.5% at a concentration of 200000 spores/mL. The virulent isolate FR13 was used.
Growth protocol leaf - Growth on soil- 60% humidity- 28degreeC day/25degreeC dark- 12h day
Extracted molecule total RNA
Extraction protocol D_FR13_3dpi_rep2:16ug.
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 Whereas plant disease resistance is well documented at the transcriptomic level, very few analyses have been conducted, especially in cereals, on plant disease susceptibility. In addition, in rice, susceptibility is often not well defined at the phenotypical level and some interactions termed as compatible can be in fact a mixture of compatible and incompatible interactions. We designed a specific experiment in which the interaction between rice and its fungal pathogen Magnaporthe grisea was truly compatible (complete absence of background resisatnce) in order to identify genes that would be differentially regulated in such condition. These genes may potentially represent targets for effectors of the pathogen.
Data processing Normalized data by GCRMA
Submission date Mar 13, 2007
Last update date Mar 13, 2007
Contact name sandrine balzergue
Organization name INRA
Street address Rue G. Morel
City Beaucouze
ZIP/Postal code 49000
Country France
Platform ID GPL2025
Series (1)
GSE7256 Identification of rice genes differentially expressed upon virulent infection by Magnaporthe grisea

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

Data table
AFFX-BioB-3_at 7.66
AFFX-BioB-5_at 7.57
AFFX-BioB-M_at 7.60
AFFX-BioC-3_at 9.27
AFFX-BioC-5_at 8.84
AFFX-BioDn-3_at 11.89
AFFX-BioDn-5_at 10.59
AFFX-CreX-3_at 14.07
AFFX-CreX-5_at 14.02
AFFX-DapX-3_at 11.31
AFFX-DapX-5_at 9.69
AFFX-DapX-M_at 10.47
AFFX-LysX-3_at 8.24
AFFX-LysX-5_at 6.33
AFFX-LysX-M_at 6.77
AFFX-Mgr-actin-3_at 2.73
AFFX-Mgr-actin-5_at 4.39
AFFX-Mgr-actin-M_at 3.26
AFFX-Mgr-ef1a-3_at 8.43
AFFX-Mgr-ef1a-3_x_at 8.09

Total number of rows: 57381

Table truncated, full table size 1345 Kbytes.

Supplementary file Size Download File type/resource
GSM174887.CEL.gz 4.1 Mb (ftp)(http) CEL
Raw data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap