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Sample GSM99863 Query DataSets for GSM99863
Status Public on Sep 15, 2006
Title TCHW P6_m103 salt stress, biological rep3
Sample type RNA
 
Source name rice crown and growing point tissue
Organism Oryza sativa Japonica Group
Characteristics salt sensitive

Treatment protocol salt stressed growth condition
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA
 
Hybridization protocol Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rice Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000.
Description Gene expression data from unstressed crown and growing point tissue of rice
Data processing The data were analyzed with GCOS 1.2 using Affymetrix default analysis settings and global scaling as normalization method
 
Submission date Mar 10, 2006
Last update date Mar 10, 2006
Contact name HARKAMAL WALIA
E-mail(s) waliah02@student.ucr.edu
Phone 951-827-3808
Organization name University of California
Street address Department of Botany & Plant Sciecnes
City Riverside
State/province CA
ZIP/Postal code 92521
Country USA
 
Platform ID GPL2025
Series (1)
GSE4438 Expression data from rice under salinity stress

Data table header descriptions
ID_REF
VALUE GCOS-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 63.8 P 0.000581
AFFX-BioB-M_at 59.5 P 0.00007
AFFX-BioB-3_at 51 P 0.000044
AFFX-BioC-5_at 166.5 P 0.000044
AFFX-BioC-3_at 182.6 P 0.000044
AFFX-BioDn-5_at 390 P 0.000044
AFFX-BioDn-3_at 720.2 P 0.000044
AFFX-CreX-5_at 1944.7 P 0.000052
AFFX-CreX-3_at 2708.7 P 0.000044
AFFX-DapX-5_at 101.3 P 0.000044
AFFX-DapX-M_at 216.8 P 0.000094
AFFX-DapX-3_at 317.4 P 0.000044
AFFX-LysX-5_at 18.8 P 0.000127
AFFX-LysX-M_at 31.7 P 0.023929
AFFX-LysX-3_at 67.6 P 0.000127
AFFX-PheX-5_at 30.8 P 0.000052
AFFX-PheX-M_at 23.8 P 0.000225
AFFX-PheX-3_at 31.6 P 0.00007
AFFX-ThrX-5_at 40 P 0.00007
AFFX-ThrX-M_at 52.1 P 0.000044

Total number of rows: 57381

Table truncated, full table size 1921 Kbytes.




Supplementary data files not provided

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