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Series GSE79707 Query DataSets for GSE79707
Status Public on Sep 01, 2017
Title Exploring the occupancy and interaction with FXR2, STAT1/3 and H3K4me3 at genomic level of FXR1 in H358 and AGS cell line by ChIP-seq
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) was conducted in the human cancer cell lines H358 and AGS using FXR1, FXR2, STAT1/3 and H3K4me3 specific antibodies on the platform Illumina HiSeq 2000. ChIP-seq data quality was analyzed using FastQC. Target protein binding genomic regions (called ChIP-seq peaks) were identified by Model-based Analysis of ChIP-Seq (MACS) algorithm using the default p-value cutoff of 1e-5.
Overall design ChIP-seq using antibodies against FXR1/FXR2/STAT1/STAT3/H3K4me3 in H358 and AGS cells
Contributor(s) Fan Y, Ma C, Yao Wang V, Li Y, Hua Y, Wen Z, Xiang B
Citation(s) 28767039
Submission date Mar 30, 2016
Last update date Jul 25, 2021
Contact name Bin Xiang
Organization name novartis institutes for biomedical research
Street address Building 3, 4218 Jinke Road, Pudong
City Shanghai
ZIP/Postal code 201203
Country China
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (15)
GSM2101435 H358_ChIPseq_Input
GSM2101436 H358_ChIPseq_FXR1
GSM2101437 H358_ChIPseq_H3K4me3
BioProject PRJNA316816
SRA SRP072556

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

Supplementary file Size Download File type/resource
GSE79707_ChIP-seq-FXR1+H3K4me3_peaks.xlsx 1.9 Mb (ftp)(http) XLSX
GSE79707_RAW.tar 654.3 Mb (http)(custom) TAR (of BED, BW, TXT, XLSX)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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