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Status |
Public on Jun 10, 2017 |
Title |
MDAMB157_STAT3_Rep1_Input_Control |
Sample type |
SRA |
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Source name |
MDA-MB-157 cells
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Organism |
Homo sapiens |
Characteristics |
cell line: MDA-MB-157 treatment: ethanol chip-seq antibody: none (input) cell type: MDA-MB-157 (Human Medulallary Carcinoma)
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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)
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Growth protocol |
TNBC cells were grown under recommended growth conditions
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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
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Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 2000 |
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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
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Submission date |
Aug 13, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Joy Agee |
E-mail(s) |
jagee@hudsonalpha.org
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Phone |
2059945492
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Organization name |
HudsonAlpha Institute for Biotechnology
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Street address |
601 Genome Way
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City |
Huntsville |
State/province |
AL |
ZIP/Postal code |
35806 |
Country |
USA |
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Platform ID |
GPL11154 |
Series (1) |
GSE85579 |
Genomic Regulation of Invasion by STAT3 in Triple Negative Breast Cancer |
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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 Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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