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Sample GSM5287717 Query DataSets for GSM5287717
Status Public on Apr 26, 2023
Title Lung cancer, #9
Sample type genomic
 
Channel 1
Source name Lung adenocarcinoma of gamma-irradiated mouse
Organism Mus musculus
Characteristics strain: F1 hybrid of B6 and C3H mice
gender: Female
tissue: Lung adenocarcinoma
treatment: gamma-irradiated
Treatment protocol Mice were left untreated or were subjected to whole-body irradiated with gamma-rays, carbon-ions or neutrons at 7 weeks old.
Growth protocol Mice were housed in autoclaved cages and maintained in a room with a controlled temperature (23 ± 1°C) and humidity (50 ± 5%) under a regular 12-hours light, 12-hours dark cycle. They were fed a standard laboratory animal diet (MBR-1; Funabashi Farm, Tokyo, Japan) and sterilized water ad libitum.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted by QIAmp DNA Micro kit (Qiagen).
Label Cy5
Label protocol Labeling reactions with cyanine 5-UTP and cyanine 3-UTP were performed according to the Agilent SureTag DNA labeling kit (Agilent Technologies, Santa Clara, CA, USA).
 
Channel 2
Source name Normal ear
Organism Mus musculus
Characteristics strain: F1 hybrid of B6 and C3H mice
gender: Female
tissue: Ear skin
Treatment protocol Mice were left untreated or were subjected to whole-body irradiated with gamma-rays, carbon-ions or neutrons at 7 weeks old.
Growth protocol Mice were housed in autoclaved cages and maintained in a room with a controlled temperature (23 ± 1°C) and humidity (50 ± 5%) under a regular 12-hours light, 12-hours dark cycle. They were fed a standard laboratory animal diet (MBR-1; Funabashi Farm, Tokyo, Japan) and sterilized water ad libitum.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted by QIAmp DNA Micro kit (Qiagen).
Label Cy3
Label protocol Labeling reactions with cyanine 5-UTP and cyanine 3-UTP were performed according to the Agilent SureTag DNA labeling kit (Agilent Technologies, Santa Clara, CA, USA).
 
 
Hybridization protocol Slides were hybridised in 1X Agilent Blocking Agent/Hi-RPM Buffer for 24 hours at 67°C in a rotating hybridization oven, then washed with the Agilent Oligo aCGH Buffer 1 and Buffer 2 in an ozone-depleted hood.
Scan protocol Scanned on an Agilent microarray scanner.
Description 09_42_3
Data processing Images were quantified using Agilent Feature Extraction Software (version 10.7.3.1).
 
Submission date May 09, 2021
Last update date Apr 27, 2023
Contact name Kazuhiro DAINO
E-mail(s) daino.kazuhiro@qst.go.jp
Organization name National Institutes for Quantum and Radiological Science and Technology
Street address 4-9-1 Anagawa, Inage-ku
City Chiba
ZIP/Postal code 263-8555
Country Japan
 
Platform ID GPL17131
Series (1)
GSE174131 Genomic DNA copy number alterations of radiation-induced lung adenocarcinomas in mice

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio (Cy5/Cy3)

Data table
ID_REF VALUE
A_67_P10000020 -0.14845796
A_67_P04000049 -0.088836074
A_67_P04000083 0.055530947
A_67_P04000126 0.07390711
A_67_P00000082 -0.17000373
A_67_P04000207 -0.2158105
A_67_P00000133 -0.12174727
A_67_P00000169 0.20379815
A_67_P04000279 0.032278363
A_67_P04000299 -0.13181244
A_67_P04000314 0.17479613
A_67_P04000334 0.1446223
A_67_P00000230 0.009544402
A_67_P10000893 -0.007392276
A_67_P00000247 0.08607298
A_67_P10000954 0.26022178
A_67_P04000400 -0.17847563
A_67_P10001001 -0.15663262
A_67_P04000433 0.05486599
A_67_P00000309 -0.17541783

Total number of rows: 170305

Table truncated, full table size 4427 Kbytes.




Supplementary file Size Download File type/resource
GSM5287717_09_42_3.txt.gz 18.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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