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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Sep 29, 2011 |
| Title |
HudsonAlpha_ChipSeq_HepG2_TCF12_PCR1x |
| Sample type |
SRA |
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| Source name |
HepG2
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| Organism |
Homo sapiens |
| Characteristics |
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: hepatocellular carcinoma
antibody antibodydescription: HEB (A-20) Rabbit polyclonal IgG, 200 ?g/ml. Epitope mapping within the C-terminus of HEB of human origin. Antibody Target: TCF12
antibody targetdescription: The protein encoded by this gene is a member of the basic helix-loop-helix (bHLH) E-protein family that recognizes the consensus binding site (E-box) CANNTG. This encoded protein is expressed in many tissues, among them skeletal muscle, thymus, B- and T-cells, and may participate in regulating lineage-specific gene expression through the formation of heterodimers with other bHLH E-proteins. Several alternatively spliced transcript variants of this gene have been described, but the full-length nature of some of these variants has not been determined.
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-357
protocol description: one 15-cycle round of PCR (Myers)
controlid: SL1400,SL1401
labexpid: SL1167,SL1060
replicate: 1,2
softwareversion: MACS
antibody targetdescription: The protein encoded by this gene is a member of the basic helix-loop-helix (bHLH) E-protein family that recognizes the consensus binding site (E-box) CANNTG. This encoded protein is expressed in many tissues, among them skeletal muscle, thymus, B- and T-cells, and may participate in regulating lineage-specific gene expression through the formation of heterodimers with other bHLH E-proteins. Several alternatively spliced transcript variants of this gene have been described, but the full-length nature of some of these variants has not been determined.
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-357
treatment: None
treatment description: No special treatment or protocol applies
protocol: PCR1x
protocol description: 1-cycle of PCR (Myers)
controlid: SL1400
labexpid: SL1060
replicate: 1
replicate description: tier 1
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| Biomaterial provider |
ATCC
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| Treatment protocol |
None
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| Growth protocol |
HepG2_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, 2011 |
| 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
|
| 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 |
SRX100381 |
| BioSample |
SAMN00738298 |
| Named Annotation |
GSM803336_hg19_wgEncodeHaibTfbsHepg2Tcf12Pcr1xRawRep1.bigWig |
| Named Annotation |
GSM803336_hg19_wgEncodeHaibTfbsHepg2Tcf12Pcr1xRawRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM803336_hg19_wgEncodeHaibTfbsHepg2Tcf12Pcr1xPkRep1.broadPeak.gz |
182.5 Kb |
(ftp)(http) |
BROADPEAK |
| GSM803336_hg19_wgEncodeHaibTfbsHepg2Tcf12Pcr1xPkRep2.broadPeak.gz |
18.0 Kb |
(ftp)(http) |
BROADPEAK |
| GSM803336_hg19_wgEncodeHaibTfbsHepg2Tcf12Pcr1xRawRep1.bigWig |
21.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM803336_hg19_wgEncodeHaibTfbsHepg2Tcf12Pcr1xRawRep2.bigWig |
10.7 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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