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Sample GSM927071 Query DataSets for GSM927071
Status Public on May 23, 2012
Title RWPE1-ERG ChIP-seq (ERG)
Sample type SRA
Source name RWPE1-ERG prostate epithelial cell line, ERG ChIP
Organism Homo sapiens
Characteristics cell line: RWPE1
cell type: benign prostate epithelial cells
overexpressing: truncated ERG
passages: 20
chip antibody: ERG
antibody vendor: Epitomics
antibody catalog #: 2805-1
antibody lot#: YE102106C
Growth protocol All cells were grown in medium following ATCC recommended conditions. Briefly, the base medium for this cell line is provided by Invitrogen (GIBCO) as part of a kit: Keratinocyte Serum Free Medium (K-SFM), Kit Catalog Number 17005-042. This kit is supplied with each of the two additives required to grow this cell line (bovine pituitary extract (BPE) and human recombinant epidermal growth factor (EGF) at the following concentrations: 0.05 mg/ml BPE - provided with the K-SFM kit. 5 ng/ml EGF - provided with the K-SFM kit.
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using phenol/chloroform and Qiagen MinElute extraction. All library constructions were generated following recommended protocols and reagents from Illumina.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer IIx
Description RWPE1 cell line stably over-expressing truncated ERG encoded by the most common TMPRSS2-ERG isoform.
Data processing ChIP-seq: Base-calling was done using the standard Illumina pipeline. We aligned the ChIP-seq reads to the hg18 human genome using BWA and identified ERG-binding sites using ChIPseeqer.
Genome_build: hg18
Supplementary_files_format_and_content: ChIPseeqer: Each row corresponds to a peak. For details, please go to:

Processed data files are linked to the Series record as supplementary files.
Submission date May 03, 2012
Last update date May 15, 2019
Contact name David Soong
Organization name Weill Cornell Medical College
Department Institute for Computational Biomedicine
Street address 1305 York Avenue
City New York
State/province NY
ZIP/Postal code 10021
Country USA
Platform ID GPL10999
Series (1)
GSE37752 Oncogene-Mediated Alterations in Chromatin Conformation
SRA SRX145843
BioSample SAMN00990802

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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