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| Status |
Public on May 22, 2012 |
| Title |
USC_ChipSeq_K562_E2F6_UCDavis |
| Sample type |
SRA |
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| Source name |
K562
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| Organism |
Homo sapiens |
| Characteristics |
lab: USC
lab description: Farnham - University of Southern California
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: E2F6
antibody antibodydescription: Rabbit polyclonal IgG, epitope corresponding to a.a. 232-281 mapping at the C-terminus of E2F-6 of human origin. Antibody Target: E2F6
antibody targetdescription: This gene encodes a member of the E2F transcription factor protein family. E2F family members play a crucial role in control of the cell cycle and of the action of tumor suppressor proteins. They are also a target of the transforming proteins of small DNA tumor viruses. Many E2F proteins contain several evolutionarily conserved domains: a DNA binding domain, a dimerization domain which determines interaction with the differentiation regulated transcription factor proteins (DP), a transactivation domain enriched in acidic amino acids, and a tumor suppressor protein association domain which is embedded within the transactivation domain. The encoded protein of this gene is atypical because it lacks the transactivation and tumor suppressor protein association domains. It contains a modular suppression domain and is an inhibitor of E2F-dependent transcription. The protein is part of a multimeric protein complex that contains a histone methyltransferase and the transcription factors Mga and Max. Multiple transcript variants have been reported for this gene, but it has not been clearly demonstrated that they encode valid isoforms (RefSeq).
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-22823
control: UCDavis
control description: Input library was prepared at UC Davis.
control: UCDavis
control description: Input library was prepared at UC Davis.
controlid: wgEncodeEH000672
labversion: Fragmented using Bioruptor, precipitated with StaphA PeakSeq 1.0 (fdr 0.001) Lane A is Illumina 2.0, low confidence sequences excluded
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
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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 |
SRX150676 |
| BioSample |
SAMN01001136 |
| Named Annotation |
GSM935597_hg19_wgEncodeSydhTfbsK562E2f6UcdSig.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM935597_hg19_wgEncodeSydhTfbsK562E2f6UcdPk.narrowPeak.gz |
271.3 Kb |
(ftp)(http) |
NARROWPEAK |
| GSM935597_hg19_wgEncodeSydhTfbsK562E2f6UcdSig.bigWig |
264.6 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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