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Sample GSM1891829 Query DataSets for GSM1891829
Status Public on Jul 22, 2016
Title LNCaP shCtrl, H3K4me2 ChIP-seq
Sample type SRA
 
Source name prostate cell line
Organism Homo sapiens
Characteristics cell line: LNCaP
genotype/variation: shCtrl
antibody: H3K4me2
Treatment protocol Cells were subjected to lentiviral infection by scramble or shFOXA1/shTET1.
Growth protocol Cell lines were maintained in RPMI supplemented with 10% FBS.
Extracted molecule genomic DNA
Extraction protocol Chromatin was fixed in 1% formaldehyde, sheared to 200-700bp using a probe sonicator, immunoprecipitated using the indicated antibody or chemically labeled, purified and sequenced using Illumina Genome Analyzers following protocols recommended by the manufacturer.
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 H3K4me2
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
Supplementary_files_format_and_content: bedGraph file and peak txt file
 
Submission date Sep 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 (1)
GSE73363 FOXA1 potentiates lineage-specific enhancer activation through modulating TET1 expression and function
Relations
BioSample SAMN04103933
SRA SRX1280789

Supplementary file Size Download File type/resource
GSM1891829_m89.bedGraph.gz 55.1 Mb (ftp)(http) BEDGRAPH
GSM1891829_m89_peak.txt.gz 1.5 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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