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Sample GSM803426 Query DataSets for GSM803426
Status Public on Sep 29, 2011
Title HudsonAlpha_ChipSeq_H1-hESC_USF-1_PCR1x
Sample type SRA
 
Source name H1-hESC
Organism Homo sapiens
Characteristics datatype: ChipSeq
datatype description: Chromatin IP Sequencing
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: SL1398
labexpid: SL1319,SL1159
replicate: 1,2
softwareversion: MACS
antibody antibodydescription: Rabbit polyclonal, USF-1 (C-20).
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 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: SL1398
labexpid: SL1159
replicate: 1
replicate description: tier 1
Biomaterial provider WiCell Research Institute
Treatment protocol None
Growth protocol missing
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 SRX100471
BioSample SAMN00738388
Named Annotation GSM803426_hg19_wgEncodeHaibTfbsH1hescUsf1Pcr1xRawRep1.bigWig
Named Annotation GSM803426_hg19_wgEncodeHaibTfbsH1hescUsf1Pcr1xRawRep2.bigWig

Supplementary file Size Download File type/resource
GSM803426_hg19_wgEncodeHaibTfbsH1hescUsf1Pcr1xPkRep1.broadPeak.gz 376.9 Kb (ftp)(http) BROADPEAK
GSM803426_hg19_wgEncodeHaibTfbsH1hescUsf1Pcr1xPkRep2.broadPeak.gz 409.6 Kb (ftp)(http) BROADPEAK
GSM803426_hg19_wgEncodeHaibTfbsH1hescUsf1Pcr1xRawRep1.bigWig 12.5 Mb (ftp)(http) BIGWIG
GSM803426_hg19_wgEncodeHaibTfbsH1hescUsf1Pcr1xRawRep2.bigWig 15.8 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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