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Sample GSM5552443 Query DataSets for GSM5552443
Status Public on Jan 07, 2022
Title RCC_AJ199: Renal cell carcinoma 4
Sample type genomic
 
Channel 1
Source name A/J mouse normal kidney
Organism Mus musculus
Characteristics genotype: A/J wild type
Sex: male
tissue: normal kidney
Treatment protocol The treated mice were intraperitoneally injected with ferric nitrilotriacetate 5 times a week for 12 weeks. The administration was started at a dose of 5 mg iron/mouse kg weight for the first two weeks. The dose was increased to 7 mg iron/mouse kg weight for the next 10 weeks. The mice were euthanized when they were dying.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using DNeasy Blood & Tissue Kit (QIAGEN).
Label Cy3
Label protocol The extracted genomic DNA was labeled using Aagilent Sure tag DNA labeling kit according to the manufacturer's protocol (Version 8.0).
 
Channel 2
Source name RCC_AJ199
Organism Mus musculus
Characteristics genotype: A/J wild type
Sex: male
treatment: Fe-NTA, 3 months
tissue: renal cell carcinoma
Treatment protocol The treated mice were intraperitoneally injected with ferric nitrilotriacetate 5 times a week for 12 weeks. The administration was started at a dose of 5 mg iron/mouse kg weight for the first two weeks. The dose was increased to 7 mg iron/mouse kg weight for the next 10 weeks. The mice were euthanized when they were dying.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using DNeasy Blood & Tissue Kit (QIAGEN).
Label Cy5
Label protocol The extracted genomic DNA was labeled using Aagilent Sure tag DNA labeling kit according to the manufacturer's protocol (Version 8.0).
 
 
Hybridization protocol The labeled DNA was hybridized with Agilent SurePrint G3 Mouse CGH 4x180k microarray at 67°C for 24 hours according to the manufacturer's protocol (Version 8.0).
Scan protocol The slides were scanned in an Agilent DNA microarray scanner with SureScan High-Resolution Technology (G2565CA).
Data processing The scanned images were analyzed with Agilent Feature Extraction Software 10.7 using default parameters (CGH_107_Sep09 protocol).
 
Submission date Sep 01, 2021
Last update date Jan 09, 2022
Contact name Shinya Toyokuni
E-mail(s) akatsuka@med.nagoya-u.ac.jp
Organization name Nagoya University
Department Pathology
Street address 65 Tsuruma-Cho, Showa-Ku
City Nagoya
State/province Aichi
ZIP/Postal code 466-8550
Country Japan
 
Platform ID GPL10449
Series (1)
GSE183173 Genomic profiles of oxidative stress-induced renal cell carcinomas developed in A/J mice

Data table header descriptions
ID_REF
VALUE Normalized signal log2 ratio [Cy5/Cy3]

Data table
ID_REF VALUE
23 0.23412733
24 -0.15458508
25 -0.10959577
26 -0.3209044
27 0.16846095
28 0.4440722
29 -0.14741679
30 0.08101268
31 0.026481226
32 0.069099426
33 -0.05179857
34 -0.17432192
35 0.13360406
36 -0.06937968
37 0.00286293
38 0.4285689
39 -0.38373712
40 0.32507563
41 -0.10562975
42 0.05011274

Total number of rows: 174303

Table truncated, full table size 3037 Kbytes.




Supplementary file Size Download File type/resource
GSM5552443_RCC_AJ199.txt.gz 50.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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