|
| Status |
Public on Feb 11, 2021 |
| Title |
shA_1 |
| Sample type |
SRA |
| |
|
| Source name |
JuB2
|
| Organism |
Canis lupus familiaris |
| Characteristics |
treatment: KDM2B knockdown by shRNA
cell type: hemangiosarcoma cell line
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Nucleospin® RNA isolation kit (Macherey-Nagel GmbH & Co.) following the manufacturer’s instructions.
RNA-seq libraries were constructed using NEBNext® Ultra RNA Library Prep Kit for llumina® (New England Biolabs, MA, USA)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
Gene_Expression_Matrix.xlsx
|
| Data processing |
Raw data was trimmed by AnnoRoad
Sequencing reads were mapped to the canine reference genome CanFam3.1 using STAR and aligned using RSEM (Dobin et al., 2013; Li and Dewey, 2011).
Genome_build: CanFam3.1
Supplementary_files_format_and_content: An excel file include TPM values for each Sample.
|
| |
|
| Submission date |
Feb 10, 2021 |
| Last update date |
Feb 11, 2021 |
| Contact name |
Keisuke Aoshima |
| E-mail(s) |
k-aoshima@vetmed.hokudai.ac.jp
|
| Organization name |
Hokkaido University
|
| Department |
Faculty of Veterinary Medicine
|
| Lab |
Comparative Pathology
|
| Street address |
Kita 18 Nishi 9
|
| City |
Sapporo |
| State/province |
Hokkaido |
| ZIP/Postal code |
0600818 |
| Country |
Japan |
| |
|
| Platform ID |
GPL27147 |
| Series (1) |
| GSE166540 |
Kdm2b promotes cell viability by enhancing DNA damage response in canine hemangiosarcoma |
|
| Relations |
| BioSample |
SAMN17854195 |
| SRA |
SRX10065897 |
