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Sample GSM6433306 Query DataSets for GSM6433306
Status Public on Dec 23, 2022
Title Mesothelioma_62401
Sample type genomic
 
Channel 1
Source name normal kidney cortex
Organism Rattus norvegicus
Characteristics genotype: Jcl:SD BRCA1+/-
Sex: Female
Sex: Female
Treatment protocol Male and female wild-type and BRCA1+/- rats at 5,6,7 weeks of age were injected intraperitoneally with 3,3,4 mg crocidolite or chrysotile. The rats 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 Mesothelioma_62401
Organism Rattus norvegicus
Characteristics treatment: Untreated
genotype: Jcl:SD BRCA1+/-
treatment: Chrysotile, 10mg
Treatment protocol Male and female wild-type and BRCA1+/- rats at 5,6,7 weeks of age were injected intraperitoneally with 3,3,4 mg crocidolite or chrysotile. The rats 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 Aug 05, 2022
Last update date Dec 23, 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 GPL10451
Series (1)
GSE210598 Genomic profiles of asbestos-induced mesothelioma developed in wild-type and BRCA1+/- SD rats

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

Data table
ID_REF VALUE
23 -0.46861959
24 -0.57961434
25 -0.06230719
26 -0.6923467
27 -0.05139367
28 0.025455859
29 0.09986531
30 0.024910677
31 0.12187349
32 -0.049027573
33 -0.11101807
34 -0.04291674
35 -0.012726733
36 -0.023985678
37 0.009854228
38 0.07161394
39 -0.15903921
40 -0.12947059
41 0.1895489
42 -0.2983822

Total number of rows: 174012

Table truncated, full table size 3023 Kbytes.




Supplementary file Size Download File type/resource
GSM6433306_CCGHarray_62401.txt.gz 50.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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