|
Status |
Public on Nov 12, 2020 |
Title |
1_Ctr: Control |
Sample type |
RNA |
|
|
Source name |
zebrafish scales
|
Organism |
Danio rerio |
Characteristics |
tissue: scale
|
Treatment protocol |
The scales were incubated at 15 °C for 6 h in Leibovitz's L-15 medium (Invitrogen, Grand Island, NY, USA) with benzo[c]phenanthrene (BcP: 1 nM) or 3-hydroxybenzo[c]phenanthrene (3-OHBcP: 1 nM).
|
Growth protocol |
Scales were collected from zebrafish under anesthesia.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNAs were prepared from zebrafish scales using a total RNA isolation kit for fibrous tissue (Qiagen GmbH, Hilden, Germany) and treated with DNase I (RNase-Free DNase kit, Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies). RNA samples with RIN (RNA integrity number) values >8.5 were considered acceptable.
|
Label |
biotin
|
Label protocol |
500 ng of total RNA was used to synthesize cRNA with a GeneChip 3’ IVT Express Kit (Affymetrix).
|
|
|
Hybridization protocol |
After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h.
|
Scan protocol |
The arrays were washed, stained with streptavidin-phycoerythrin and scanned with a probe array scanner (Affymetrix).
|
Description |
Scales were incubated at 15°C for 6 h.
|
Data processing |
GeneChip Analysis Suite (Expression Console)
|
|
|
Submission date |
Nov 11, 2020 |
Last update date |
Nov 12, 2020 |
Contact name |
Yoshiaki Tabuchi |
E-mail(s) |
ytabu@cts.u-toyama.ac.jp
|
Organization name |
University of Toyama
|
Department |
Life Science Research Center
|
Lab |
Division of Molecular Genetics Research
|
Street address |
2630 Sugitani
|
City |
Toyama |
State/province |
Toyama |
ZIP/Postal code |
930-0194 |
Country |
Japan |
|
|
Platform ID |
GPL1319 |
Series (1) |
GSE161253 |
Effects of polycyclic aromatic hydrocarbons on osteoclasts and osteoblasts in the scales of zebrafish |
|