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Series GSE141802 Query DataSets for GSE141802
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
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.
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 ( 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.
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
Phone 81757514813
Organization name Kyoto University
Department Institute for Frontier Life and Medical Sciences
Lab Laboratory of Systems Virology
Street address 53 Shogoinkawara-cho, Sakyo-ku
City Kyoto
State/province Kyoto
ZIP/Postal code 6068507
Country Japan
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (33)
GSM4213496 A549_ZNF135
GSM4213497 A549_ZNF141
GSM4213498 A549_ZNF169
This SubSeries is part of SuperSeries:
GSE141803 Roles of human endogenous retroviruses and KRAB-zinc finger proteins in tumor progression
BioProject PRJNA594761
SRA SRP235680

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE141802_KZFP_OE.expression.matrix.csv.gz 3.5 Mb (ftp)(http) CSV
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Raw data are available in SRA
Processed data are available on Series record

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