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Sample GSM5552445 Query DataSets for GSM5552445
Status Public on Jan 07, 2022
Title RCC_AJ202: Renal cell carcinoma 6
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_AJ202
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 0.02613715
24 0.027616402
25 -0.33358052
26 -0.14726655
27 -0.06628191
28 -0.032395236
29 0.050063353
30 -0.3939542
31 0.008254935
32 0.093551576
33 -0.007621512
34 -0.44410992
35 -0.04233014
36 -0.13734977
37 -0.17692155
38 0.26421362
39 -0.011018058
40 0.27958822
41 -0.1407485
42 -0.110701054

Total number of rows: 174303

Table truncated, full table size 3049 Kbytes.




Supplementary file Size Download File type/resource
GSM5552445_RCC_AJ202.txt.gz 50.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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