|
| Status |
Public on Oct 28, 2021 |
| Title |
Ep2_1_fpkmfpkm |
| Sample type |
SRA |
| |
|
| Source name |
ferret epithelial cells NBL-7
|
| Organism |
Mustela putorius furo |
| Characteristics |
cell type: ferret epithelial cells NBL-7
treatment: treated with particulate matter with 250 ug/mL
|
| Treatment protocol |
As paper discription
|
| Growth protocol |
The cells were cultured in the DMEM/FBS medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells tissue samples were lyzed and harvested using Trizol reagent. THe purification of RNA was performed using protocol provided by extracting kits (Total RNA Extraction Kit, Cat. R1200, Solarbio life science, China).
RNA library were prepared for sequencnig using standard illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling
Sequenced reads were trimed for adaptor sequence, and masked for low-complexity or low quality sequence, then mapped to the mm8 hole genome using bowtie v0.12.2 with parameters set as defaults.
Reads for kilobased of exon per megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009.
Genome_build: mm8
|
| |
|
| Submission date |
Oct 21, 2021 |
| Last update date |
Oct 28, 2021 |
| Contact name |
Haigang wu |
| E-mail(s) |
whg_2018@henu.edu.cn
|
| Organization name |
Henan University
|
| Department |
School of Life Sciences
|
| Street address |
dongjing Road
|
| City |
Kaifeng |
| State/province |
Henan province |
| ZIP/Postal code |
475000 |
| Country |
China |
| |
|
| Platform ID |
GPL28629 |
| Series (1) |
| GSE186322 |
RNA sequencing reveals particulate matter exposure-induced cholesterol metabolism disorder in ferret lung epithelial cells |
|
| Relations |
| BioSample |
SAMN22481781 |
| SRA |
SRX12725227 |
