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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Sep 13, 2012 |
| Title |
Stanford_ChipSeq_SK-N-SH_CTCF_(SC-15914)_IgG-rab |
| Sample type |
SRA |
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| Source name |
SK-N-SH
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| Organism |
Homo sapiens |
| Characteristics |
lab: Stanford
lab description: Snyder - Stanford University
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell: SK-N-SH
cell organism: human
cell description: neuroblastoma, newly promoted to tier 2: not in 2011 analysis, the SK-N-SH line was established from a neuroblastoma in a 4 year old individual.
cell karyotype: cancer
cell lineage: ectoderm
cell sex: F
treatment: None
treatment description: No special treatment or protocol applies
antibody: CTCF_(SC-15914)
antibody antibodydescription: Goat polyclonal, epitope mapping near the C-terminus of CTCF of human origin. Antibody Target: CTCF
antibody targetdescription: Transcriptional regulator with 11 highly conserved zinc finger domains. Depending on context, can bind a histone acetyltransferase (HAT)-containing complex and function as transcriptional activator or bind a histone deacetylase (HDAC)-containing complex and function as transcriptional repressor. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation. Can dimerize, mediating long-range chromatin looping. When bound to chromatin, provides an anchor point for nucleosomes positioning. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites.
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-15914
control: IgG-rab
control description: Input signal from Normal Rabbit IgG ChIP-seq.
control: IgG-rab
control description: Input signal from Normal Rabbit IgG ChIP-seq.
controlid: wgEncodeEH003393
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| Biomaterial provider |
ATCC
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| Treatment protocol |
None
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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 |
Sep 13, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
[email protected]
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| Organization name |
ENCODE DCC
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| 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 |
SRX186638 |
| BioSample |
SAMN01174054 |
| Named Annotation |
GSM1003633_hg19_wgEncodeSydhTfbsSknshCtcfbIggrabSig.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM1003633_hg19_wgEncodeSydhTfbsSknshCtcfbIggrabPk.narrowPeak.gz |
691.5 Kb |
(ftp)(http) |
NARROWPEAK |
| GSM1003633_hg19_wgEncodeSydhTfbsSknshCtcfbIggrabSig.bigWig |
421.4 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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