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Sample GSM4213500 Query DataSets for GSM4213500
Status Public on Sep 29, 2020
Title A549_ZNF19
Sample type SRA
 
Source name Lung adenocarcinoma (A549) cells
Organism Homo sapiens
Characteristics cell line: A549
genotype/variation: ZNF19 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) su9ark@gmail.com
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
 
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 SAMN13528798
SRA SRX7341895

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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