|
| Status |
Public on Dec 02, 2014 |
| Title |
mRNA from HBx+HCP transgenic line |
| Sample type |
SRA |
| |
|
| Source name |
zebrafish liver
|
| Organism |
Danio rerio |
| Characteristics |
phenotype: intrahepatic cholangiocarcinoma
strain: HBx+HCP transgenic
tissue: liver
|
| Treatment protocol |
Transgenic zebrafish were generated by Tol2 transposon mediated transgenesis
|
| Growth protocol |
Zebrafish were cultured and maintained with a controlled light cycle of 14 h light/10 h dark at 28 °C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA from liver tissue was extracted using a TRIzol Reagent kit (Invitrogen). For transcriptome sequencing, the poly(A) RNA from total RNA was isolated by using the Poly(A)PuristTM MAG Kit (Ambion). After construction of whole transcriptome library and template beads preparation, the sequencing run was performed by using SOLiD 3 System. Data analysis was performed with SOLiD Analysis Tool Pipeline.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
AB SOLiD System 3.0 |
| |
|
| Description |
HBx+HCP
|
| Data processing |
HBx+HCP_count.txt; genome build: Zv9
Counts: Sequence reads were obtained and mapped to the zebrafish (Zv9) genomes using the SOLiD Analysis Tool Pipeline. All reads mapping with fewer mismatches were retained.
|
| |
|
| Submission date |
Dec 16, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Wangta Liu |
| Organization name |
Institute of Cellular and Organismic Biology, Academia Sinica
|
| Street address |
Academia Rd.
|
| City |
Taipei |
| ZIP/Postal code |
115 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL10658 |
| Series (1) |
| GSE34493 |
A zebrafish model of intrahepatic cholangiocarcinoma by dual expression of hepatitis B virus X and hepatitis C virus core protein in liver |
|
| Relations |
| SRA |
SRX112005 |
| BioSample |
SAMN00766282 |
