|
| Status |
Public on Aug 01, 2021 |
| Title |
Mammary carcinoma, #4 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Mammary carcinoma induced by radiation
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: Carcinoma
gender: Female
strain: F1 hybrid of Sprague-Dawley and Copenhagen rats
|
| Treatment protocol |
Rats were left untreated or were subjected to whole-body 137Cs gamma-irradiation (4 Gy, 0.5 Gy/min) at 7 weeks of age.
|
| Growth protocol |
Rats were housed in autoclaved cages and maintained in a room with a controlled temperature (23 ± 1°C) and humidity (50 ± 5%) under a regular 12-hours light, 12-hours dark cycle. They were fed a standard laboratory animal diet (CE-2; Clea Japan, Tokyo, Japan) and sterilized water ad libitum.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated by proteinase K digestion, followed by phenol/chloroform extraction.
|
| Label |
Cy5
|
| Label protocol |
Labeling reactions with cyanine 5-UTP and cyanine 3-UTP were performed according to the Agilent SureTag DNA labeling kit (Agilent Technologies, Santa Clara, CA, USA).
|
| |
|
| Channel 2 |
| Source name |
Normal ear
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: Ear skin
gender: Female
strain: F1 hybrid of Sprague-Dawley and Copenhagen rats
|
| Treatment protocol |
Rats were left untreated or were subjected to whole-body 137Cs gamma-irradiation (4 Gy, 0.5 Gy/min) at 7 weeks of age.
|
| Growth protocol |
Rats were housed in autoclaved cages and maintained in a room with a controlled temperature (23 ± 1°C) and humidity (50 ± 5%) under a regular 12-hours light, 12-hours dark cycle. They were fed a standard laboratory animal diet (CE-2; Clea Japan, Tokyo, Japan) and sterilized water ad libitum.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated by proteinase K digestion, followed by phenol/chloroform extraction.
|
| Label |
Cy3
|
| Label protocol |
Labeling reactions with cyanine 5-UTP and cyanine 3-UTP were performed according to the Agilent SureTag DNA labeling kit (Agilent Technologies, Santa Clara, CA, USA).
|
| |
|
| |
| Hybridization protocol |
Slides were hybridised in 1X Agilent Blocking Agent/Hi-RPM Buffer for 40 hours at 65°C in a rotating hybridization oven, then washed with the Agilent Oligo aCGH Buffer 1 and Buffer 2 in an ozone-depleted hood.
|
| Scan protocol |
Scanned on an Agilent microarray scanner.
|
| Description |
04_J07
|
| Data processing |
Images were quantified using Agilent Feature Extraction Software (version 10.7.3.1).
|
| |
|
| Submission date |
Oct 30, 2020 |
| Last update date |
Aug 02, 2021 |
| Contact name |
Kazuhiro DAINO |
| E-mail(s) |
daino.kazuhiro@qst.go.jp
|
| Organization name |
National Institutes for Quantum and Radiological Science and Technology
|
| Street address |
4-9-1 Anagawa, Inage-ku
|
| City |
Chiba |
| ZIP/Postal code |
263-8555 |
| Country |
Japan |
| |
|
| Platform ID |
GPL29326 |
| Series (1) |
| GSE160514 |
DNA copy number alterations in radiation-induced rat mammary carcinomas |
|
