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Sample GSM803342 Query DataSets for GSM803342
Status Public on Sep 29, 2011
Title HudsonAlpha_ChipSeq_GM12878_BCL3_v041610.1
Sample type SRA
 
Source name GM12878
Organism Homo sapiens
Characteristics datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
antibody antibodydescription: Rabbit polyclonal. Bcl-3(C-14) is an affinity purified antibody raised against a peptide mapping at the C-terminus of Bcl-3 of human origin. Recommended for detection of Bcl-3 of mouse, rat and human origin by WB, IP, IF and ELISA. Antibody Target: BCL3
antibody targetdescription: This gene is a proto-oncogene candidate. It is identified by its translocation into the immunoglobulin alpha-locus in some cases of B-cell leukemia. The protein encoded by this gene contains seven ankyrin repeats, which are most closely related to those found in I kappa B proteins. This protein functions as a transcriptional co-activator that activates through its association with NF-kappa B homodimers. The expression of this gene can be induced by NF-kappa B, which forms a part of the autoregulatory loop that controls the nuclear residence of p50 NF-kappa B. (Provided by RefSeq).
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-185
controlid: SL1613
labexpid: SL3931,SL3728
replicate: 1,2
softwareversion: MACS
antibody antibodydescription: Bcl-3(C-14) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the C-terminus of Bcl-3 of human origin. Recommended for detection of Bcl-3 of m, r and h origin by WB, IP, IF and ELISA.
antibody targetdescription: This gene is a proto-oncogene candidate. It is identified by its translocation into the immunoglobulin alpha-locus in some cases of B-cell leukemia. The protein encoded by this gene contains seven ankyrin repeats, which are most closely related to those found in I kappa B proteins. This protein functions as a transcriptional co-activator that activates through its association with NF-kappa B homodimers. The expression of this gene can be induced by NF-kappa B, which forms a part of the autoregulatory loop that controls the nuclear residence of p50 NF-kappa B. (Provided by RefSeq).
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-185
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: SL1613
labexpid: SL3728
replicate: 1
replicate description: tier 1
Biomaterial provider Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12878
Treatment protocol None
Growth protocol GM12878_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 SRX100387
BioSample SAMN00738304
Named Annotation GSM803342_hg19_wgEncodeHaibTfbsGm12878Bcl3V0416101RawRep1.bigWig
Named Annotation GSM803342_hg19_wgEncodeHaibTfbsGm12878Bcl3V0416101RawRep2.bigWig

Supplementary file Size Download File type/resource
GSM803342_hg19_wgEncodeHaibTfbsGm12878Bcl3V0416101PkRep1.broadPeak.gz 348.2 Kb (ftp)(http) BROADPEAK
GSM803342_hg19_wgEncodeHaibTfbsGm12878Bcl3V0416101PkRep2.broadPeak.gz 114.2 Kb (ftp)(http) BROADPEAK
GSM803342_hg19_wgEncodeHaibTfbsGm12878Bcl3V0416101RawRep1.bigWig 36.8 Mb (ftp)(http) BIGWIG
GSM803342_hg19_wgEncodeHaibTfbsGm12878Bcl3V0416101RawRep2.bigWig 16.1 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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