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Sample GSM803527 Query DataSets for GSM803527
Status Public on Sep 29, 2011
Title HudsonAlpha_ChipSeq_HepG2_USF-1_PCR1x
Sample type SRA
 
Source name HepG2
Organism Homo sapiens
Characteristics datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: hepatocellular carcinoma
antibody antibodydescription: Rabbit polyclonal, USF-1 (C-20). Antibody Target: USF1
antibody targetdescription: The ubiquitously expressed cellular upstream stimulatory factor (USF) consists of USF-1 and USF-2 polypeptides which independently exhibit site-specific DNA binding and are members of the c-Myc-related family of regulatory factors containing helix-loop-helix domains. USF also contains a leucine repeat that is required for efficient DNA binding. USF was originally identified as an up- stream stimulatory factor that binds the core sequence CACGTG in the adeno- virus late promoter. These findings, together with the demonstration of coop- erative interaction between USF and the initiator-binding protein, TFII-I, raises the possibility of a more general involvement of USF in transcriptional regula- tion. While expression of both USF-1 and USF-2 species is ubiquitous, different ratios of USF homo- and heterodimers are found in different cell types.
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-229
protocol description: one 15-cycle round of PCR (Myers)
controlid: SL819,SL593
labexpid: SL636,SL582
labversion: SL636,SL582
replicate: 1,2
softwareversion: MACS
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-229
treatment: None
treatment description: No special treatment or protocol applies
protocol: PCR1x
protocol description: 1-cycle of PCR (Myers)
controlid: SL593
labexpid: SL582
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 SRX100572
BioSample SAMN00738489
Named Annotation GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xRawRep1.bigWig
Named Annotation GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xRawRep2.bigWig

Supplementary file Size Download File type/resource
GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xPkRep1.broadPeak.gz 311.7 Kb (ftp)(http) BROADPEAK
GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xPkRep2.broadPeak.gz 607.2 Kb (ftp)(http) BROADPEAK
GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xRawRep1.bigWig 13.0 Mb (ftp)(http) BIGWIG
GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xRawRep2.bigWig 56.7 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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