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Sample GSM116399 Query DataSets for GSM116399
Status Public on Jun 08, 2009
Title Seedling_IAA treated_rep1
Sample type RNA
 
Source name 7-day-old light-grown rice seedlings
Organism Oryza sativa
Characteristics Subspecies: indica
Variety: IR64
Tissue: light-grown seedlings
Stage: 7-day-old
Treatment protocol seedlings were kept in 50 micromolar solution of indole-3-acetic acid (IAA) for 1h and 3h and pooled together in equal amount before RNA isolation
Growth protocol Seedlings were grown on cotton saturated with reverse-osmosis water at 28 degree centigrade in a culture room with a daily photoperiodic cycle of 14h light and 10h dark
Extracted molecule total RNA
Extraction protocol TRIzol reagent
Label Biotin
 
Description Rice seedlings were kept in 50 micromolar solution of indole-3-acetic acid (IAA) for 1h and 3h to serve as IAA-treated sample and equal amount was pooled before RNA isolation. The high-quality total RNA (260/280 ratio between 1.9-2.1 and 260/230 ratio >2.0) was used for microarray analysis
Data processing Signal intensity was calculated by GCOS1.4 under default parameters
 
Submission date Jun 27, 2006
Last update date Jun 08, 2009
Contact name Mukesh Jain
Phone 91-11-26704686
Organization name Jawaharlal Nehru University
Street address New Mehrauli Road
City New Delhi
State/province New Delhi
ZIP/Postal code 110067
Country India
 
Platform ID GPL2025
Series (1)
GSE5167 Rice seedling hormone treatment

Data table header descriptions
ID_REF
VALUE GCOS1.4-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 that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 93.9 P 0.003595
AFFX-BioB-M_at 74.5 P 0.000044
AFFX-BioB-3_at 70.8 P 0.000052
AFFX-BioC-5_at 200.9 P 0.000044
AFFX-BioC-3_at 197.5 P 0.000052
AFFX-BioDn-5_at 387 P 0.000044
AFFX-BioDn-3_at 893.1 P 0.000052
AFFX-CreX-5_at 2294.8 P 0.000052
AFFX-CreX-3_at 3109.6 P 0.000044
AFFX-DapX-5_at 258.6 P 0.000044
AFFX-DapX-M_at 576.6 P 0.00006
AFFX-DapX-3_at 853.7 P 0.000052
AFFX-LysX-5_at 40.2 P 0.00006
AFFX-LysX-M_at 76.8 P 0.002023
AFFX-LysX-3_at 183.1 P 0.00007
AFFX-PheX-5_at 64.3 P 0.000095
AFFX-PheX-M_at 56.6 P 0.000581
AFFX-PheX-3_at 89.4 P 0.000052
AFFX-ThrX-5_at 68.9 P 0.000052
AFFX-ThrX-M_at 133.6 P 0.000044

Total number of rows: 57381

Table truncated, full table size 1934 Kbytes.




Supplementary file Size Download File type/resource
GSM116399.CEL.gz 7.9 Mb (ftp)(http) CEL
GSM116399.EXP.gz 351 b (ftp)(http) EXP

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