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Sample GSM803486 Query DataSets for GSM803486
Status Public on Sep 29, 2011
Title HudsonAlpha_ChipSeq_HepG2_CTCF_(SC-5916)_v041610.1
Sample type SRA
 
Source name HepG2
Organism Homo sapiens
Characteristics datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: hepatocellular carcinoma
antibody antibodydescription: Goat polyclonal IgG, epitope mapping at the N-terminus of CTCF of human origin. Antibody Target: CTCF
antibody targetdescription: This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. (provided by RefSeq)
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-5916
controlid: SL1781
labexpid: SL3176,SL3582
replicate: 1,2
antibody: CTCF_(SC-5916)
antibody antibodydescription: Goat polyclonal IgG, epitope mapping at the N-terminus of CTCF of human origin.
antibody targetdescription: This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. (provided by RefSeq)
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-5916
treatment: None
treatment description: No special treatment or protocol applies
protocol: v041610.1
protocol description: 2x10^7 cells, fragmentation by bioruptor, one 15-cycle round of PCR (Myers)
controlid: SL1781
labexpid: SL3176
replicate: 1
replicate description: tier 1
Biomaterial provider ATCC
Treatment protocol None
Growth protocol HepG2_protocol.pdf
Extracted molecule genomic DNA
Extraction protocol Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
 
Data processing http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
 
Submission date Sep 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 CA
ZIP/Postal code 94305-5120
Country USA
 
Platform ID GPL9052
Series (2)
GSE32465 Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB
GSE51334 DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions
Relations
SRA SRX100531
BioSample SAMN00738448
Named Annotation GSM803486_hg19_wgEncodeHaibTfbsHepg2Ctcfsc5916V0416101RawRep1.bigWig
Named Annotation GSM803486_hg19_wgEncodeHaibTfbsHepg2Ctcfsc5916V0416101RawRep2.bigWig

Supplementary file Size Download File type/resource
GSM803486_hg19_wgEncodeHaibTfbsHepg2Ctcfsc5916V0416101PkRep1.broadPeak.gz 986.3 Kb (ftp)(http) BROADPEAK
GSM803486_hg19_wgEncodeHaibTfbsHepg2Ctcfsc5916V0416101PkRep2.broadPeak.gz 557.0 Kb (ftp)(http) BROADPEAK
GSM803486_hg19_wgEncodeHaibTfbsHepg2Ctcfsc5916V0416101RawRep1.bigWig 63.8 Mb (ftp)(http) BIGWIG
GSM803486_hg19_wgEncodeHaibTfbsHepg2Ctcfsc5916V0416101RawRep2.bigWig 34.4 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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