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Sample GSM1831739 Query DataSets for GSM1831739
Status Public on Oct 01, 2015
Title MCF7 ER ChIP-seq E2 HOTAIR
Sample type SRA
 
Source name prostate tumor
Organism Homo sapiens
Characteristics cell line: MCF7
transgene: HOTAIR
treatment: E2
antibody: ER
Treatment protocol Chromatin was fixed in 1% formaldehyde, sheared to 200-700bp using an ultrasonic sonicator (Misonix), immunoprecipitated using the indicated antisera, purified and sequenced using Illumina Genome Analyzers followig protocols recommended by the manufacturer.
Growth protocol Cell lines were maintained in DMEM supplemented with 10% FBS, then starved with hormone-free media (FCS) and treated with EtOH or E2.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared according to Illumina's instructions.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiScanSQ
 
Description Chromatin IP against ER
Data processing Reads were aligned to the hg19 reference human genome using bwa v0.6.1
Peak-calling by HOMER v4.1
Genome_build: hg19
Genome_build: hg19
Supplementary_files_format_and_content: bedGraph file
 
Submission date Jul 23, 2015
Last update date May 15, 2019
Contact name Jindan Yu
E-mail(s) jindan.yu@emory.edu
Organization name Emory University
Department Urology
Lab Jindan Yu's lab
Street address E330, 1760 Haygood Dr NE
City Atlanta
State/province GA
ZIP/Postal code 30322
Country USA
 
Platform ID GPL15456
Series (2)
GSE71276 LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer [ChIP-Seq]
GSE71298 LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer
Relations
BioSample SAMN03897342
SRA SRX1116525

Supplementary file Size Download File type/resource
GSM1831739_m189.bedGraph.gz 57.2 Mb (ftp)(http) BEDGRAPH
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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