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Status
Public on Dec 30, 2007
Title
C3H_Lung_NoIrradiation
Sample type
RNA
Channel 1
Source name
Lung_NoIrradiation
Organism
Mus musculus
Characteristics
'Strain: C3H/HeMs', 'Gender: female', 'Age: 12~13 week'
Treatment protocol
No treatment
Extracted molecule
total RNA
Extraction protocol
ISOGEN(Wako pure chemical)+RNeasy(QIAGEN)
Label
Cy3
Label protocol
Agilent Fluorescent Direct Label Kit Protocol (June 2003 Rev 2.1), Publication Number: G2555-98003_JUNE_2003
Channel 2
Source name
control RNA mixture
Organism
Mus musculus
Characteristics
Ten of First Choice total RNA (Ambion, Inc.) derived from ten organs(midterm embryo, thymus, ovary, testicle, spleen, lung, heart, liver, kidney, brain) were equally mixed.
Biomaterial provider
Ambion, Inc.
Extracted molecule
total RNA
Label
Cy5
Label protocol
Agilent Fluorescent Direct Label Kit Protocol (June 2003 Rev 2.1), Publication Number: G2555-98003_JUNE_2003
Hybridization protocol
cDNA Microarray Kit Protocol (Double barcoded slide) Version 7.0, Publication Number: G4100-98000
Scan protocol
Agilent Microarray Scanner User Manual (6.3, 5th edition, December 2003), Publication Number: G2566-90009 10µm resolution, 100% PMT
Description
In channel 1, total RNA was purified and pooled from 3 mice
Data processing
Feature Extraction Software (Agilent Technologies)
Submission date
Feb 23, 2006
Last update date
Apr 22, 2007
Contact name
Shuhei Noda
E-mail(s)
s_noda@nirs.go.jp
Organization name
National institute of radiological sciences
Department
Frontier research center
Street address
Anagawa 4-9-1
City
Chiba
State/province
Chiba
ZIP/Postal code
2658333
Country
Japan
Platform ID
GPL872
Series (1)
GSE4312
Radiation-induced genes commonly expressed in lung and skin among three strains of mice.
Data table header descriptions
ID_REF
VALUE
LogRatio. log10(Dye normalized red(Cy5) Signal/Dye normalized green(Cy3) Signal) per feature
gMeanSignal
Raw mean signal of feature in green(Cy3) channel
rMeanSignal
Raw mean signal of feature in red(Cy5) channel
gBGMeanSignal
Mean local background signal (local to corresponding feature) in green(Cy3) channel
rBGMeanSignal
Mean local background signal (local to corresponding feature) in red(Cy5) channel
Data table
ID_REF
VALUE
gMeanSignal
rMeanSignal
gBGMeanSignal
rBGMeanSignal
1
0.0454022
62868.4
52732.4
628.355
428.248
2
-0.338639
866.038
580.846
612.331
419.787
3
-0.240695
756.667
565.875
615.3
421.443
4
-0.281883
871.92
617.84
612.518
425.759
5
-0.359461
662.87
461.043
616.756
439.526
6
-0.21472
824.923
630
633.565
461.217
7
-0.294652
656.593
476.148
630.319
470.474
8
0.639641
1293.36
4717
610.481
450.615
9
-0.0164089
850.458
826.042
616.82
437.898
12
-0.205344
4640.21
2994.17
628.226
467.752
14
0.273194
5356.75
9534.29
628.028
453.567
15
-0.103025
5334.83
4191.96
646.359
468.519
16
0.23747
22230.4
32298.3
653.849
472.349
17
0.0931914
11716.4
13088.3
674.857
473.414
19
0.655798
8820.04
36068.1
768.313
524.731
20
1.16553
968.091
9713.18
728.099
523.527
21
0.626615
8689.22
33280.4
691
504.771
22
0.0601593
2133
2498.17
676.746
484.556
23
1.76441
988.16
38892.6
673.5
483.023
24
0.499813
24786.6
64876.2
664.315
483.408
Total number of rows: 9275 Table truncated, full table size 416 Kbytes .Supplementary data files not provided