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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 22, 2012 |
| Title |
Stanford_ChipSeq_K562_UBF_(sc-13125)_IgG-mus |
| Sample type |
SRA |
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| Source name |
K562
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| 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
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| Biomaterial provider |
ATCC
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| Treatment protocol |
None
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| Growth protocol |
K562_protocol.pdf
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| 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
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
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| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeSydhTfbs
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| Submission date |
May 22, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
[email protected]
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| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
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| 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 |
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| 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 Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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