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Status
Public on Dec 30, 2007
Title
A/J_Skin_12h
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_12h
Organism
Mus musculus
Characteristics
'Strain: A/J', 'Gender: female', 'Age: 12~13 week'
Treatment protocol
Twelve hours 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
-0.352717
41904.2
61290.7
605.299
342.493
2
-0.345704
697.538
415.962
600.863
332.54
3
-0.375118
680.88
397.72
599.358
331.784
4
-0.191317
687.84
463.48
601.333
331.636
5
-0.473144
623.409
349.227
590.915
331.961
6
-0.297352
653.731
401.5
591.437
331.119
7
-0.503453
614.455
341.273
582.866
332.079
8
-0.391274
817.692
473.269
573.897
330.881
9
-0.342441
626.417
373.708
568.733
328.817
12
0.613469
745
1755.22
562.391
328.065
14
0.342751
982.792
1874.58
551.223
327.608
15
0.345261
765.4
1142.72
550.847
325.891
16
0.0259863
2128.81
3321.11
561.89
327.378
17
0.162709
1096.21
1607.17
561.345
326.791
19
-0.270845
1760.17
1422.17
559.168
327.092
20
0.640367
926.609
3047.43
563.679
327.382
21
-0.254372
1981.12
1709.77
565.418
325.522
22
-0.00842594
689.48
559.4
557.504
324.872
23
-1.55122
2226.28
370.56
555.992
323.039
24
-0.172589
6319
8982.8
574.772
327.596
Total number of rows: 9275 Table truncated, full table size 412 Kbytes .Supplementary data files not provided