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Sample GSM357136 Query DataSets for GSM357136
Status Public on Jan 08, 2009
Title 14-day-old seedling, heat shock, rep 2
Sample type RNA
 
Source name 14-day-old rice seedlings, heat shock treatment
Organism Oryza sativa
Characteristics Japonica, variety: ZhongHua 11
Treatment protocol 42 degree celsius for 3 h
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 142.493 P 5.16732e-05
AFFX-BioB-M_at 157.937 P 4.42873e-05
AFFX-BioB-3_at 160.146 P 4.42873e-05
AFFX-BioC-5_at 403.213 P 5.16732e-05
AFFX-BioC-3_at 466.765 P 4.42873e-05
AFFX-BioDn-5_at 891.618 P 4.42873e-05
AFFX-BioDn-3_at 1716.39 P 6.02111e-05
AFFX-CreX-5_at 4828.31 P 5.16732e-05
AFFX-CreX-3_at 5450.38 P 4.42873e-05
AFFX-DapX-5_at 455.411 P 4.42873e-05
AFFX-DapX-M_at 805.407 P 5.16732e-05
AFFX-DapX-3_at 1207.25 P 4.42873e-05
AFFX-LysX-5_at 78.5493 P 4.42873e-05
AFFX-LysX-M_at 80.5309 P 0.000389797
AFFX-LysX-3_at 190.843 P 5.16732e-05
AFFX-PheX-5_at 131.563 P 4.42873e-05
AFFX-PheX-M_at 108.82 P 0.00010954
AFFX-PheX-3_at 114.025 P 4.42873e-05
AFFX-ThrX-5_at 110.229 P 7.00668e-05
AFFX-ThrX-M_at 166.317 P 4.42873e-05

Total number of rows: 57381

Table truncated, full table size 2185 Kbytes.




Supplementary file Size Download File type/resource
GSM357136.CEL.gz 4.6 Mb (ftp)(http) CEL
GSM357136.CHP.gz 314.8 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table

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