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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
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
Data processing
Submission date May 22, 2012
Last update date May 15, 2019
Contact name ENCODE DCC
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
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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