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Sample GSM5552440 Query DataSets for GSM5552440
Status Public on Jan 07, 2022
Title RCC_AJ193: Renal cell carcinoma 1
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_AJ193
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 0.31567404
24 0.17353427
25 0.2730786
26 -0.02898525
27 0.07726619
28 0.4402642
29 -0.003327121
30 0.40433228
31 0.3051709
32 0.22408067
33 0.37003493
34 -0.6526646
35 0.29605696
36 -0.27936554
37 -0.6164154
38 0.6154815
39 -0.13456866
40 0.52751064
41 0.05354843
42 0.25980324

Total number of rows: 174303

Table truncated, full table size 3017 Kbytes.




Supplementary file Size Download File type/resource
GSM5552440_RCC_AJ193.txt.gz 50.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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