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GEO help: Mouse over screen elements for information.
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| Status |
Public on Sep 28, 2012 |
| Title |
HudsonAlpha_ChipSeq_K562_PML_(SC-71910)_v042211.1 |
| 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
antibody antibodydescription: Mouse monoclonal IgG, N-terminal epitope corresponding to residues 37-51 of PML of human origin. Antibody Target: PML
antibody targetdescription: The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. This phosphoprotein localizes to nuclear bodies where it functions as a transcription factor and tumor suppressor. Its expression is cell-cycle related and it regulates the p53 response to oncogenic signals. The gene is often involved in the translocation with the retinoic acid receptor alpha gene associated with acute promyelocytic leukemia (APL). Extensive alternative splicing of this gene results in several variations of the protein's central and C-terminal regions; all variants encode the same N-terminus. Alternatively spliced transcript variants encoding different isoforms have been identified. (provided by RefSeq)
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-71910
controlid: SL6023
labexpid: SL7894,SL8137
softwareversion: MACS
cell sex: F
antibody: PML_(SC-71910)
antibody antibodydescription: Mouse monoclonal IgG, N-terminal epitope corresponding to residues 37-51 of PML of human origin. Antibody Target: PML
antibody targetdescription: The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. This phosphoprotein localizes to nuclear bodies where it functions as a transcription factor and tumor suppressor. Its expression is cell-cycle related and it regulates the p53 response to oncogenic signals. The gene is often involved in the translocation with the retinoic acid receptor alpha gene associated with acute promyelocytic leukemia (APL). Extensive alternative splicing of this gene results in several variations of the protein's central and C-terminal regions; all variants encode the same N-terminus. Alternatively spliced transcript variants encoding different isoforms have been identified. (provided by RefSeq)
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-71910
treatment: None
treatment description: No special treatment or protocol applies
protocol: v042211.1
protocol description: Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
controlid: SL6023
labexpid: SL7894,SL8137
replicate: 1,2
softwareversion: MACS
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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=wgEncodeHaibTfbs
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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=wgEncodeHaibTfbs
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| Submission date |
Sep 28, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
encode-help@lists.stanford.edu
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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) |
| GSE32465 |
Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB |
| GSE51334 |
DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions |
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| Relations |
| SRA |
SRX190178 |
| BioSample |
SAMN01731608 |
| Named Annotation |
GSM1010722_hg19_wgEncodeHaibTfbsK562Pmlsc71910V0422111RawRep1.bigWig |
| Named Annotation |
GSM1010722_hg19_wgEncodeHaibTfbsK562Pmlsc71910V0422111RawRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM1010722_hg19_wgEncodeHaibTfbsK562Pmlsc71910V0422111PkRep1.broadPeak.gz |
183.2 Kb |
(ftp)(http) |
BROADPEAK |
| GSM1010722_hg19_wgEncodeHaibTfbsK562Pmlsc71910V0422111PkRep2.broadPeak.gz |
322.1 Kb |
(ftp)(http) |
BROADPEAK |
| GSM1010722_hg19_wgEncodeHaibTfbsK562Pmlsc71910V0422111RawRep1.bigWig |
14.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM1010722_hg19_wgEncodeHaibTfbsK562Pmlsc71910V0422111RawRep2.bigWig |
20.2 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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