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Series GSE141385 Query DataSets for GSE141385
Status Public on May 26, 2020
Title Epstein-Barr virus positive gastric cancer involves enhancer activation through ATF3
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary ATF3 binding sites on the genome and histone modification arround the ATF3 binding sites were analized by ChIP-seq. Regulation of gene expression by ATF3 on active enhacer regions were analyzed by knocked down of ATF3.
Overall design Human gastric cancer cell lines MKN7 (MKN7_WT), Epstein-barr virus infected MKN7 (MKN7_EB), NCC24 and SNU719 were transfected ATF3 targeted or non-targeted shRNA lentivirus (shATF3 or shNON respectively) followed by drug selection with puromycin for 2 days. Total RNA was extracted after the drug selection for RNA-seq. MKN7_WT cells were treated with 30 micro mol/L of CDDP for 2 days to induce ATF3 followed by ChIP.
Contributor(s) Asakawa Y, Fukuyo M, Okabe A, Kaneda A
Citation(s) 32119176
Submission date Dec 03, 2019
Last update date May 26, 2020
Contact name Masaki Fukuyo
Organization name Chiba University
Department Department of Molecular Oncology
Street address 1-8-1 Inohana, Chuo-ku
City Chiba
ZIP/Postal code 260-8670
Country Japan
Platforms (2)
GPL18460 Illumina HiSeq 1500 (Homo sapiens)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (12)
GSM4202156 MKN7_WT_RNAseq
GSM4202157 MKN7_EB_RNAseq
GSM4202158 MKN7_WT_shNON_RNAseq
BioProject PRJNA593250
SRA SRP234565

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

Supplementary file Size Download File type/resource
GSE141385_RAW.tar 155.3 Mb (http)(custom) TAR (of BEDGRAPH, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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