|
| Status |
Public on Sep 29, 2020 |
| Title |
A549_ZNF808 |
| Sample type |
SRA |
| |
|
| Source name |
Lung adenocarcinoma (A549) cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A549
genotype/variation: ZNF808 overexpression
|
| Treatment protocol |
Doxycycline (1.0 µg/mL).
|
| Growth protocol |
F-12K medium with 1.0 µg/mL puromycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAamp RNA Blood Mini Kit.
RNA libraries were prepared for sequencing using standard Illumina protocols. Quality checks, library construction, and sequencing were performed by Novogene (https://en.novogene.com).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
PolyA RNA
processed data file: KZFP_OE.expression.matrix.csv
|
| Data processing |
Sequenced reads were trimmed with Trimmomatic.
Sequenced reads were mapped to the human reference genome using STAR.
Mapped reads on respective genetic features were counted using featureCounts.
Genome_build: hg38 (GRCh38)
Supplementary_files_format_and_content: KZFP_OE.expression.matrix.csv: Comma-separated text file includes expression read count matrix.
|
| |
|
| Submission date |
Dec 10, 2019 |
| Last update date |
Sep 29, 2020 |
| Contact name |
Kei Sato |
| E-mail(s) |
[email protected]
|
| Phone |
81364092212
|
| Organization name |
The Institute of Medical Science, The University of Tokyo
|
| Department |
Department of Microbiology and Immunology
|
| Lab |
Division of Systems Virology
|
| Street address |
4-6-1 Shiroganedai
|
| City |
Minato-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
1088639 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE141802 |
Identification of potential target genes of KRAB zinc-finger proteins in cancer cells |
| GSE141803 |
Roles of human endogenous retroviruses and KRAB-zinc finger proteins in tumor progression |
|
| Relations |
| BioSample |
SAMN13528807 |
| SRA |
SRX7341919 |
