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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Oct 25, 2011 |
| Title |
UT-A_ChipSeq_K562_CTCF |
| Sample type |
SRA |
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| Source name |
K562
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| Organism |
Homo sapiens |
| Characteristics |
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
treatment: None
treatment description: No special treatment or protocol applies
antibody antibodydescription: Rabbit polyclonal. Antibody Target: CTCF
antibody targetdescription: CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendorname: Millipore
antibody vendorid: 07-729
controlid: wgEncodeEH000529
labversion: baseAlignCounts.pl v 1,1% ENCODE array platform validation tests,p-value cutoff: 0.05,fseq v 1.84, iff_K562
replicate: 1,3,2
antibody antibodydescription: rabbit polyclonal
antibody targetdescription: CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendorname: Millipore
antibody vendorid: 07-729
controlid: K562/Input
labversion: align_on_cluster_bwa.pl v 1
replicate: 1
replicate description: tier 1
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| Biomaterial provider |
ATCC
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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=wgEncodeOpenChromChip
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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=wgEncodeOpenChromChip
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| Submission date |
Oct 25, 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 |
| |
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| Platform ID |
GPL9052 |
| Series (2) |
| GSE33213 |
Open Chromatin TFBS by ChIP-seq from ENCODE/Open Chrom(UT Austin) |
| GSE51334 |
DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions |
|
| Relations |
| Reanalyzed by |
GSM1002657 |
| SRA |
SRX103010 |
| BioSample |
SAMN00744180 |
| Named Annotation |
GSM822311_hg19_wgEncodeOpenChromChipK562CtcfBaseOverlapSignal.bigWig |
| Named Annotation |
GSM822311_hg19_wgEncodeOpenChromChipK562CtcfSig.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM822311_hg19_wgEncodeOpenChromChipK562CtcfBaseOverlapSignal.bigWig |
160.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM822311_hg19_wgEncodeOpenChromChipK562CtcfPk.narrowPeak.gz |
1.4 Mb |
(ftp)(http) |
NARROWPEAK |
| GSM822311_hg19_wgEncodeOpenChromChipK562CtcfSig.bigWig |
3.3 Gb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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