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Sample GSM154958 Query DataSets for GSM154958
Status Public on Feb 15, 2007
Title Leaf_control_replicate 2
Sample type RNA
 
Source name Oryza sativa leaf, empty vector control
Organism Oryza sativa
Characteristics Strain: Oryza sativa L. cv Nipponbare transformed with pActnos/Hmz, T0 line, Tissue: leaf, Age: 75 days after germination
Growth protocol Transgenic plants of the T0 generation from callus grown on regeneration agar plates for 6 weeks were transferred to agar plates containing 1 X Murashige and Skoog salts, 3 % (w/v) sucrose, and 50 µg mL-1 hygromycin-B (MS-agar plate) for 7 d, and then hydroponically grown until heading in an environment-controlled greenhouse with a photoperiod of 12 h light (30°C)/12 h dark (25°C).
Extracted molecule total RNA
Extraction protocol Total RNA was prepared with the RNeasy plant Mini Kit (Qiagen).
Label biotin
Label protocol Approximately 10 µg of total RNA was processed to produce biotinylated cRNA targets.
 
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description Publication: Naoya Hirose, Nobue Makita, Mikiko Kojima, Tomoe Kamada-Nobusada and Hitoshi Sakakibara (2007) Over-expression of a Type-A Response Regulator Alters Rice Morphology and Cytokinin Metabolism. Plant Cell Physiology, 48: in press.
Data processing GCOS1.2
 
Submission date Jan 12, 2007
Last update date Feb 15, 2007
Contact name Hitoshi Sakakibara
E-mail(s) sakaki@riken.jp
Phone 81-45-503-9576
Fax 81-45-503-9609
Organization name RIKEN
Department Plant Science Center
Lab Biodynamics Research Team
Street address 1-7-22 Suehiro, Tsurumi
City Yokohama
ZIP/Postal code 230-0045
Country Japan
 
Platform ID GPL2025
Series (2)
GSE6720 Gene expression in OsRR6-overexpression line
GSE6737 Over-expression of a Type-A Response Regulator Alters Rice Morphology and Cytokinin Metabolism

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 347.7 P 0.000662
AFFX-BioB-M_at 375.7 P 0.000044
AFFX-BioB-3_at 458.1 P 0.00007
AFFX-BioC-5_at 869 P 0.000052
AFFX-BioC-3_at 800.4 P 0.000044
AFFX-BioDn-5_at 2235.1 P 0.000044
AFFX-BioDn-3_at 4978.8 P 0.000052
AFFX-CreX-5_at 11195.5 P 0.000052
AFFX-CreX-3_at 13390.5 P 0.000044
AFFX-DapX-5_at 9.3 A 0.425962
AFFX-DapX-M_at 9.5 A 0.631562
AFFX-DapX-3_at 16.5 A 0.354453
AFFX-LysX-5_at 1.8 A 0.868639
AFFX-LysX-M_at 23.4 A 0.559354
AFFX-LysX-3_at 38.5 P 0.046482
AFFX-PheX-5_at 1.4 A 0.834139
AFFX-PheX-M_at 3.3 A 0.737173
AFFX-PheX-3_at 24.4 A 0.559354
AFFX-ThrX-5_at 2.2 A 0.969024
AFFX-ThrX-M_at 10.7 A 0.58862

Total number of rows: 57381

Table truncated, full table size 1959 Kbytes.




Supplementary file Size Download File type/resource
GSM154958.CEL.gz 8.3 Mb (ftp)(http) CEL

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