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Sample GSM357122 Query DataSets for GSM357122
Status Public on Jan 08, 2009
Title 14-day-old seedling, rep 1
Sample type RNA
 
Source name 14-day-old rice seedlings
Organism Oryza sativa
Characteristics Japonica, variety: ZhongHua 11
Treatment protocol Control
Growth protocol Seedlings were grown in a growth chamber with a daily photoperiodic cycle of 14 h light and 10 h dark at about 28-30 degree celsius
Extracted molecule total RNA
Extraction protocol Extraction of total RNA was performed using Trizol, according to the manufacturer's instructions
Label Biotin
Label protocol Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45 degree celsius on GeneChip Rice Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450
Scan protocol GeneChips were scanned using GeneChip Scanner 3000
Description 14-day-old light-grown rice seedlings
Data processing The data were analyzed with GeneChipOperating Software (1.4) using Affymetrix default analysis settings and global scaling as normalization method. The mean target intensity of each array was arbitrarily set to 100.
 
Submission date Jan 04, 2009
Last update date Jan 06, 2009
Contact name Bin Han
E-mail(s) bhan@ncgr.ac.cn
Organization name National Center for Gene Research´╝îChinese Academy of Sciences
Street address 500 Cao Bao Road
City Shanghai
ZIP/Postal code 200233
Country China
 
Platform ID GPL2025
Series (1)
GSE14275 Expression data for heat shock in rice seedlings

Data table header descriptions
ID_REF
VALUE GeneChip Operating Software 1.4 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 p-value indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 158.748 P 5.16732e-05
AFFX-BioB-M_at 148.726 P 4.42873e-05
AFFX-BioB-3_at 142.606 P 4.42873e-05
AFFX-BioC-5_at 436.433 P 5.16732e-05
AFFX-BioC-3_at 460.174 P 4.42873e-05
AFFX-BioDn-5_at 834.191 P 4.42873e-05
AFFX-BioDn-3_at 1938.8 P 6.02111e-05
AFFX-CreX-5_at 4399.24 P 5.16732e-05
AFFX-CreX-3_at 5527.35 P 4.42873e-05
AFFX-DapX-5_at 345.236 P 4.42873e-05
AFFX-DapX-M_at 562.303 P 6.02111e-05
AFFX-DapX-3_at 1047.52 P 4.42873e-05
AFFX-LysX-5_at 58.953 P 4.42873e-05
AFFX-LysX-M_at 42.226 P 0.000169025
AFFX-LysX-3_at 124.061 P 6.02111e-05
AFFX-PheX-5_at 96.8522 P 7.00668e-05
AFFX-PheX-M_at 68.7855 P 0.000169227
AFFX-PheX-3_at 92.1399 P 7.00668e-05
AFFX-ThrX-5_at 99.1837 P 6.02111e-05
AFFX-ThrX-M_at 144.675 P 4.42873e-05

Total number of rows: 57381

Table truncated, full table size 2185 Kbytes.




Supplementary file Size Download File type/resource
GSM357122.CEL.gz 4.5 Mb (ftp)(http) CEL
GSM357122.CHP.gz 317.7 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table

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