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Sample GSM240011 Query DataSets for GSM240011
Status Public on Nov 01, 2007
Title LTH x Guy11 24h-3
Sample type RNA
 
Channel 1
Source name Mock infection
Organism Oryza sativa
Characteristics cultivar : LTH
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. LTH) 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 : LTH
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. LTH) 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 29, 2007
Last update date Oct 30, 2007
Contact name Tomoaki Kato
E-mail(s) [email protected]
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 -0.53 0.00 4684.31 1370.63 1019.71 825.54 43.09 61.52
2 0.00 1.00 21.31 16.01 73.78 123.00 43.05 61.89
3 0.03 0.93 298.14 318.40 137.34 287.44 43.26 62.46
4 0.01 0.99 131.38 135.46 104.61 190.25 43.05 62.20
5 -0.18 0.85 121.06 79.41 102.53 160.39 43.36 62.19
6 -0.11 0.93 89.11 69.72 96.03 154.66 43.78 62.28
7 -0.94 0.00 3355.48 388.01 749.04 318.63 43.86 62.65
8 -0.02 0.94 371.21 353.85 150.70 303.48 43.51 61.70
9 0.03 0.56 2772.65 3004.01 634.11 1661.04 43.36 61.82
10 0.44 0.85 23.18 63.25 80.86 148.61 43.42 61.39
11 -0.02 0.73 11717.34 11255.52 2398.53 5976.85 43.78 62.40
12 -0.04 0.90 334.52 305.85 142.77 276.61 43.07 62.82
13 0.01 0.98 283.51 289.55 132.55 267.59 44.00 62.01
14 -0.89 0.00 3274.33 423.37 731.71 333.64 43.46 62.21
15 -0.01 0.93 907.56 887.46 257.69 573.27 44.12 62.53
16 0.28 0.93 19.38 37.02 79.74 132.65 43.57 61.54
17 0.03 0.93 274.64 293.25 130.07 267.75 43.41 60.97
18 0.01 0.89 1558.66 1595.85 388.46 934.27 43.27 57.83
19 -0.37 0.00 283234.70 120215.60 54033.81 65203.37 46.28 61.85
20 0.06 0.76 501.57 572.22 174.89 410.28 44.05 61.03

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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