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Status
Public on Dec 30, 2007
Title
A/J_Skin_1h
Sample type
RNA
Channel 1
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
Cy3
Label protocol
Agilent Fluorescent Direct Label Kit Protocol (June 2003 Rev 2.1), Publication Number: G2555-98003_JUNE_2003
Channel 2
Source name
Skin_1h
Organism
Mus musculus
Characteristics
'Strain: A/J', 'Gender: female', 'Age: 12~13 week'
Treatment protocol
One hour after local irrradiation (hind leg, 30Gy)
Extracted molecule
total RNA
Extraction protocol
ISOGEN(Wako pure chemical)+RNeasy(QIAGEN)
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 2, total RNA was purified and pooled from 3 mice. Skin was taken as full layers.
Data processing
Feature Extraction Software (Agilent Technologies)
Submission date
Feb 24, 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
0.0455435
50273.8
65501.8
536.282
339.336
2
-0.259959
636.217
370.435
541.767
324.566
3
-0.0517621
626.556
415.296
539.474
322.839
4
-0.142228
636.04
396.36
540.719
322.055
5
-0.377302
573.273
330.773
540.742
323.359
6
-0.203983
580.077
355.462
537.889
319.963
7
-0.436787
577.222
326.222
538.878
323.183
8
-0.387652
795.885
400.615
541.818
322.045
9
-0.292617
613.88
355.72
542.568
319.356
12
0.265089
760.5
745.917
541.103
321.404
14
0.35392
931.88
1165.8
543.431
320.547
15
0.349881
769.643
861.25
543.674
318.326
16
-0.00664268
2090.78
1684.93
542.492
319.258
17
0.103288
1007.72
860.84
539.948
318.815
19
-0.148655
1723.05
1054.73
548.493
322.187
20
0.48768
913.96
1437.16
552.315
320.2
21
-0.422878
1884.6
751
552.47
319.343
22
-0.148481
699.615
429.769
556.023
319.459
23
-1.40148
2187
346.75
553.207
319.089
24
-0.114909
6444.13
4729.26
548.053
317.788
Total number of rows: 9275 Table truncated, full table size 413 Kbytes .Supplementary data files not provided