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Sample GSM935338 Query DataSets for GSM935338
Status Public on May 22, 2012
Title Stanford_ChipSeq_K562_UBF_(sc-13125)_IgG-mus
Sample type SRA
 
Source name K562
Organism Homo sapiens
Characteristics lab: Stanford
lab description: Snyder - Stanford University
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell: K562
cell organism: human
cell description: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC
cell karyotype: cancer
cell lineage: mesoderm
cell sex: F
treatment: None
treatment description: No special treatment or protocol applies
antibody: UBF_(sc-13125)
antibody antibodydescription: UBF (F-9) is a mouse monoclonal antibody raised against amino acids 1-220 of UBF of human origin. Antibody Target: UBF
antibody targetdescription: Upstream binding factor (UBF) is a transcription factor required for expression of the 18S, 5.8S, and 28S ribosomal RNAs, along with SL1 (a complex of TBP (MIM 600075) and multiple TBP-associated factors or 'TAFs'). Two UBF polypeptides, of 94 and 97 kD, exist in the human (Bell et al., 1988 (PubMed 3413483)). UBF is a nucleolar phosphoprotein with both DNA binding and transactivation domains. Sequence-specific DNA binding to the core and upstream control elements of the human rRNA promoter is mediated through several HMG boxes
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-13125
control: IgG-mus
control description: Input signal from Normal Mouse IgG ChIP-seq.
control: IgG-mus
control description: Input signal from Normal Mouse IgG ChIP-seq.
controlid: wgEncodeEH000726
replicate: 1
Biomaterial provider ATCC
Treatment protocol None
Growth protocol K562_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=wgEncodeSydhTfbs
 
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=wgEncodeSydhTfbs
 
Submission date May 22, 2012
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)
GSE31477 ENCODE Transcription Factor Binding Sites by ChIP-seq from Stanford/Yale/USC/Harvard
GSE51334 DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions
Relations
SRA SRX150418
BioSample SAMN01000879
Named Annotation GSM935338_hg19_wgEncodeSydhTfbsK562Ubfsc13125IggmusSig.bigWig

Supplementary file Size Download File type/resource
GSM935338_hg19_wgEncodeSydhTfbsK562Ubfsc13125IggmusPk.narrowPeak.gz 620.4 Kb (ftp)(http) NARROWPEAK
GSM935338_hg19_wgEncodeSydhTfbsK562Ubfsc13125IggmusSig.bigWig 296.4 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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