|
Status |
Public on Jun 10, 2017 |
Title |
MDAMB157_Nontarget_siRNA_Rep2 |
Sample type |
SRA |
|
|
Source name |
MDA-MB-157 cells
|
Organism |
Homo sapiens |
Characteristics |
cell line: MDA-MB-157 treatment: Nontargeting siRNA 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 |
total RNA |
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 |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
MDA468_MDA157_STAT3_Lib_List.txt.SharedGeneCounts.txt
|
Data processing |
RNA-seq paired-end FASTQ files were aligned to hg19 female using Tophat and Cufflinks Sequence counts for each transcript were compiled across all experiments for each time point Genome_build: hg19 female Supplementary_files_format_and_content: [.txt] Gene transcript sequence counts for all genes across all experiments in each time point
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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
|
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 |
SAMN05572281 |
SRA |
SRX2020881 |