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Sample GSM239993 Query DataSets for GSM239993
Status Public on Nov 01, 2007
Title 12m x Guy11 24h-3
Sample type RNA
 
Channel 1
Source name Mock infection
Organism Oryza sativa
Characteristics cultivar : IRBL12-M
Age : 14 days
Tissue : Leaf
Treatment protocol Fourteen days old rice plants were sprayed with conidia-free water and inoculated in a dew chamber at 25 degreeC for 16 h then transferred to a greenhouse. Total RNAs were isolated from fourth leaves at 24hpi.
Growth protocol Ten rice seeds (Oryza sativa L. cv. IRBL12-M) were sown in a pot that has been filled with a commercial soil mixture (Bonsol type 1; Sumitomo Chemical, Osaka, Japan). The pot was then submerged in water inside a container and was kept in a greenhouse at 28 degreeC under natural sunlight for 14 days.
Extracted molecule total RNA
Extraction protocol kit : RNeasy mini kit
Manufacture : Qiagen
Label Cy3
Label protocol kit : Low input RNA linear amplification kit
Manufacture : Agilent Technologies
 
Channel 2
Source name Guy11 infection
Organism Oryza sativa
Characteristics cultivar : IRBL12-M
Age : 14 days
Tissue : Leaf
Guy11 : A wild type of the Magnaporthe grisea.
Treatment protocol Fourteen days old rice plants were sprayed with Guy11 conidia suspension (100,000/mL) and inoculated in a dew chamber at 25 degreeC for 16 h then transferred to a greenhouse. Total RNAs were isolated from fourth leaves at 24hpi.
Growth protocol Ten rice seeds (Oryza sativa L. cv. IRBL12-M) were sown in a pot that has been filled with a commercial soil mixture (Bonsol type 1; Sumitomo Chemical, Osaka, Japan). The pot was then submerged in water inside a container and was kept in a greenhouse at 28 degreeC under natural sunlight for 14 days.
Extracted molecule total RNA
Extraction protocol kit : RNeasy mini kit
Manufacture : Qiagen
Label Cy5
Label protocol kit : Low input RNA linear amplification kit
Manufacture : Agilent Technologies
 
 
Hybridization protocol Kit : in situ hybridization kit plus
Manufacture : Agilent Technologies
Scan protocol Scanner : Agilent DNA microarray scanner
Manufacture: Agilent Technologies
Description Keyword : Oryza sativa
Keyword : Magnaporthe grisea
Guy11 is a wild type of the Magnaporthe grisea.
Data processing Feature Extraction ver 9.1 (Agilent Technologies)
 
Submission date Oct 28, 2007
Last update date Oct 30, 2007
Contact name Tomoaki Kato
E-mail(s) tomkato@nias.affrc.go.jp
Organization name National Institute of Agrobiological Sciences
Department Division of Plant Sciences
Lab Plant-Microbe Interactions Research Unit
Street address 2-1-2 Kannondai
City Tsukuba
State/province Ibaraki
ZIP/Postal code 305-8602
Country Japan
 
Platform ID GPL892
Series (1)
GSE9450 Rice plants infected by Rice blast fungus

Data table header descriptions
ID_REF
VALUE log10 [normalized Ch2 / normalized Ch1]
PVALUE Significance level of the value computed for a feature
NORM_SIG_CH1 Dye-normalized signal intensity of CH1
NORM_SIG_CH2 Dye-normalized signal intensity of CH2
MeanSignal_CH1 Raw mean CH1 signal of feature
MeanSignal_CH2 Raw mean CH2 signal of feature
BGMeanSignal_CH1 Mean local background CH1 signal
BGMeanSignal_CH2 Mean local background CH2 signal

Data table
ID_REF VALUE PVALUE NORM_SIG_CH1 NORM_SIG_CH2 MeanSignal_CH1 MeanSignal_CH2 BGMeanSignal_CH1 BGMeanSignal_CH2
1 -0.84 0.00 10512.46 1511.98 1862.52 861.10 42.21 60.68
2 0.00 1.00 24.85 16.59 74.35 93.20 42.63 61.11
3 -0.03 0.91 483.86 448.85 152.61 335.32 43.15 61.88
4 0.00 1.00 24.57 15.82 67.29 103.21 42.96 61.57
5 -0.15 0.89 155.49 111.25 96.81 168.21 42.92 61.25
6 -0.33 0.89 80.25 37.44 84.25 131.53 43.05 61.28
7 -1.36 0.00 8414.02 363.19 1518.40 291.36 43.35 61.92
8 0.04 0.89 393.52 435.38 137.31 328.49 42.94 60.57
9 0.08 0.27 2367.14 2844.68 476.73 1508.82 43.26 61.45
10 0.00 1.00 24.71 15.00 69.90 117.07 43.00 61.26
11 0.02 0.63 16904.53 17849.85 2869.40 9194.55 43.47 61.57
12 -0.10 0.91 177.89 142.31 100.82 182.88 43.82 61.70
13 -0.09 0.86 310.81 254.45 123.33 238.57 43.64 61.31
14 -1.37 0.00 12001.03 510.04 2131.87 362.81 43.94 61.90
15 -0.06 0.59 1476.75 1287.82 324.79 742.25 43.04 62.74
16 0.05 0.94 217.19 241.87 107.48 231.70 42.47 61.75
17 -0.15 0.60 582.66 415.77 170.05 317.07 42.84 60.38
18 -0.02 0.86 1850.83 1783.51 389.00 985.09 43.52 58.65
19 -0.44 0.00 332056.60 121576.60 52308.57 65216.34 43.10 57.98
20 -0.04 0.89 562.06 516.57 166.76 366.00 43.58 58.86

Total number of rows: 22575

Table truncated, full table size 1261 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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