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| Status |
Public on Sep 29, 2020 |
| Title |
Identification of potential target genes of KRAB zinc-finger proteins in cancer cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
KRAB zinc-finger proteins (KZFPs) are potent transcriptional suppressors and suspected to be associated with cancer progression. To identify the potential target genes of KZFPs in lung adenocarcinoma cells, we established a panel of A459 cell lines that over-express 30 types of KZFPs (A549/KZFP cells) and performed RNA-sequencing (RNA-Seq) analysis of these cells.
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| Overall design |
The lentivirus vector expressing HA-tagged KZFP was transduced into A459 cells. The ectopic expression of KZFP in A549/KZFP cells was verified by Western blotting with an anti-HA antibody. Total RNA was extracted from the A549/KZFP cells by QIAamp RNA Blood Mini Kit (QIAGEN #52304) and treated with RNase-Free DNase Set (QIAGEN #79254). Quality check of the purified RNA, library construction, and sequencing were performed by Novogene (https://en.novogene.com). Pair-ended and 150bp read length sequencing was performed by Illumina Novaseq6000. Single-replicate experiment was performed for respective A549/KZFP cells, and triplicate experiment was performed for the empty vector-transduced A549 cells.
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| Contributor(s) |
Kimura I, Misawa N, Ito J |
| Citation(s) |
33087347 |
| Submission date |
Dec 10, 2019 |
| Last update date |
Nov 09, 2020 |
| Contact name |
Kei Sato |
| E-mail(s) |
su9ark@gmail.com
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| Phone |
81757514813
|
| Organization name |
Kyoto University
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| Department |
Institute for Frontier Life and Medical Sciences
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| Lab |
Laboratory of Systems Virology
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| Street address |
53 Shogoinkawara-cho, Sakyo-ku
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| City |
Kyoto |
| State/province |
Kyoto |
| ZIP/Postal code |
6068507 |
| Country |
Japan |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (33)
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| This SubSeries is part of SuperSeries: |
| GSE141803 |
Roles of human endogenous retroviruses and KRAB-zinc finger proteins in tumor progression |
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| Relations |
| BioProject |
PRJNA594761 |
| SRA |
SRP235680 |
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