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Sample GSM5552442 Query DataSets for GSM5552442
Status Public on Jan 07, 2022
Title RCC_AJ198: Renal cell carcinoma 3
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_AJ198
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 0.3236528
24 0.094352946
25 -0.73768634
26 -0.1067929
27 0.013651555
28 0.41583532
29 0.09821562
30 0.27612066
31 0.28975818
32 0.22066054
33 0.08225607
34 -0.16639885
35 0.26295874
36 0.028622491
37 0.12746148
38 0.6557638
39 -0.17158109
40 0.37227094
41 -0.006517097
42 0.20922464

Total number of rows: 174303

Table truncated, full table size 3027 Kbytes.




Supplementary file Size Download File type/resource
GSM5552442_RCC_AJ198.txt.gz 50.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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