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Sample GSM2278012 Query DataSets for GSM2278012
Status Public on Jun 10, 2017
Title MDAMB157_STAT3_Rep1_Input_Control
Sample type SRA
 
Source name MDA-MB-157 cells
Organism Homo sapiens
Characteristics cell line: MDA-MB-157
treatment: ethanol
chip-seq antibody: none (input)
cell type: MDA-MB-157 (Human Medulallary Carcinoma)
Treatment protocol HCC70, MDA-MB-231, MDA-MB-468, MDA-MB-157, HCC1143 were treated with Ethanol, STAT3 pooled siRNA (L-003544-00-0005, GE Healthcare, Logan, UT), Nontargeting siRNA (D-001810-01-05, GE Healthcare, Logan, UT)
Growth protocol TNBC cells were grown under recommended growth conditions
Extracted molecule genomic DNA
Extraction protocol ChIP-seq was performed as previously described (Reddy et al. Molecular Cell 2013). RNA-seq was performed as previously outlned (Gertz et al. 2012)
Illumina Single End for ChIP-seq, Illumina Paired End for RNA-seq
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
Data processing ChIP-seq and ChIP input control FASTQ files were aligned to hg19 female genome using Bowtie
Peak Calling was performed using MACS peak caller
Genome_build: hg19 female
Supplementary_files_format_and_content: [.bedgraph] Chromosome number, start position, stop position, dataValue
 
Submission date Aug 13, 2016
Last update date May 15, 2019
Contact name Joy Agee
E-mail(s) jagee@hudsonalpha.org
Phone 2059945492
Organization name HudsonAlpha Institute for Biotechnology
Street address 601 Genome Way
City Huntsville
State/province AL
ZIP/Postal code 35806
Country USA
 
Platform ID GPL11154
Series (1)
GSE85579 Genomic Regulation of Invasion by STAT3 in Triple Negative Breast Cancer
Relations
BioSample SAMN05572258
SRA SRX2020850

Supplementary file Size Download File type/resource
GSM2278012_MDAMB157_STAT3_Rep1_Input_Control.bedgraph.gz 4.3 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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