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Sample GSM749704

Query DataSets for GSM749704

Status

Public on Jun 29, 2011

Title

Stam_GM12878_CTCF_1

Sample type

SRA

Source name

GM12878

Organism

Homo sapiens

Characteristics

cell: GM12878
cell organism: Human
cell description: lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype: normal
cell lineage: mesoderm
cell sex: F
antibody: CTCF
antibody description: rabbit polyclonal
antibody target description: CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendor name: Millipore
replicate: 1

Biomaterial provider

Coriell; http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM12878

Growth protocol

Cells were grown according to ENCODE cell culture protocols: http://genome.ucsc.edu/ENCODE/protocols/cells/human/GM12878_protocol.pdf

Extracted molecule

genomic DNA

Extraction protocol

For extraction protocol details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeUwTfbs

Library strategy

ChIP-Seq

Library source

genomic

Library selection

ChIP

Instrument model

Illumina Genome Analyzer II

Data processing

For data processing details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeUwTfbs

Submission date

Jun 28, 2011

Last update date

May 15, 2019

Contact name

ENCODE DCC

E-mail(s)

encode-help@lists.stanford.edu

Organization name

ENCODE DCC

Street address

300 Pasteur Dr

City

Stanford

State/province

ZIP/Postal code

94305-5120

Country

USA

Platform ID

GPL9115

Series (2)

GSE30263	CTCF Binding Sites by ChIP-seq from ENCODE/University of Washington
GSE51334	DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions

Relations

SRA

SRX080367

BioSample

SAMN00631385

Named Annotation

GSM749704_hg19_wgEncodeUwTfbsGm12878CtcfStdRawRep1.bigWig

Supplementary file	Size	Download	File type/resource
GSM749704_hg19_wgEncodeUwTfbsGm12878CtcfStdAlnRep1.bam	266.5 Mb	(ftp)(http)	BAM
GSM749704_hg19_wgEncodeUwTfbsGm12878CtcfStdHotspotsRep1.broadPeak.gz	1.5 Mb	(ftp)(http)	BROADPEAK
GSM749704_hg19_wgEncodeUwTfbsGm12878CtcfStdPkRep1.narrowPeak.gz	533.3 Kb	(ftp)(http)	NARROWPEAK
GSM749704_hg19_wgEncodeUwTfbsGm12878CtcfStdRawRep1.bigWig	56.8 Mb	(ftp)(http)	BIGWIG
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file