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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_HNF4A_(SC-8987)_v041610.1 |
| 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: Rabbit polyclonal IgG, epitope corresponding to a.a. 295-465 mapping at the C-terminus of HNF4A of human origin. Antibody Target: HNF4A
antibody targetdescription: The protein encoded by this gene is a nuclear transcription factor which binds DNA as a homodimer. The encoded protein controls the expression of several genes, including hepatocyte nuclear factor 1 alpha, a transcription factor which regulates the expression of several hepatic genes (RefSeq).
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-8987
controlid: SL1400,SL1781
labexpid: SL1481,SL2125
replicate: 1,2
softwareversion: MACS
antibody antibodydescription: Rabbit polyclonal IgG, epitope corresponding to a.a. 295-465 mapping at the C-terminus of HNF4A of human origin.
antibody targetdescription: The protein encoded by this gene is a nuclear transcription factor which binds DNA as a homodimer. The encoded protein controls the expression of several genes, including hepatocyte nuclear factor 1 alpha, a transcription factor which regulates the expression of several hepatic genes (RefSeq).
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-8987
treatment: None
treatment description: No special treatment or protocol applies
protocol: v041610.1
protocol description: 2x10^7 cells, fragmentation by bioruptor, one 15-cycle round of PCR (Myers)
controlid: SL1400
labexpid: SL1481
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 |
SRX100505 |
| BioSample |
SAMN00738422 |
| Named Annotation |
GSM803460_hg19_wgEncodeHaibTfbsHepg2Hnf4asc8987V0416101RawRep1.bigWig |
| Named Annotation |
GSM803460_hg19_wgEncodeHaibTfbsHepg2Hnf4asc8987V0416101RawRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM803460_hg19_wgEncodeHaibTfbsHepg2Hnf4asc8987V0416101PkRep1.broadPeak.gz |
403.9 Kb |
(ftp)(http) |
BROADPEAK |
| GSM803460_hg19_wgEncodeHaibTfbsHepg2Hnf4asc8987V0416101PkRep2.broadPeak.gz |
375.4 Kb |
(ftp)(http) |
BROADPEAK |
| GSM803460_hg19_wgEncodeHaibTfbsHepg2Hnf4asc8987V0416101RawRep1.bigWig |
17.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM803460_hg19_wgEncodeHaibTfbsHepg2Hnf4asc8987V0416101RawRep2.bigWig |
13.9 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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