|
Status |
Public on Sep 29, 2011 |
Title |
HudsonAlpha_ChipSeq_HepG2_USF-1_PCR1x |
Sample type |
SRA |
|
|
Source name |
HepG2
|
Organism |
Homo sapiens |
Characteristics |
datatype: ChipSeq datatype description: Chromatin IP Sequencing cell description: hepatocellular carcinoma antibody antibodydescription: Rabbit polyclonal, USF-1 (C-20). Antibody Target: USF1 antibody targetdescription: The ubiquitously expressed cellular upstream stimulatory factor (USF) consists of USF-1 and USF-2 polypeptides which independently exhibit site-specific DNA binding and are members of the c-Myc-related family of regulatory factors containing helix-loop-helix domains. USF also contains a leucine repeat that is required for efficient DNA binding. USF was originally identified as an up- stream stimulatory factor that binds the core sequence CACGTG in the adeno- virus late promoter. These findings, together with the demonstration of coop- erative interaction between USF and the initiator-binding protein, TFII-I, raises the possibility of a more general involvement of USF in transcriptional regula- tion. While expression of both USF-1 and USF-2 species is ubiquitous, different ratios of USF homo- and heterodimers are found in different cell types. antibody vendorname: Santa Cruz Biotechnology antibody vendorid: sc-229 protocol description: one 15-cycle round of PCR (Myers) controlid: SL819,SL593 labexpid: SL636,SL582 labversion: SL636,SL582 replicate: 1,2 softwareversion: MACS antibody vendorname: Santa Cruz Biotech antibody vendorid: sc-229 treatment: None treatment description: No special treatment or protocol applies protocol: PCR1x protocol description: 1-cycle of PCR (Myers) controlid: SL593 labexpid: SL582 replicate: 1 replicate description: tier 1
|
Biomaterial provider |
ATCC
|
Treatment protocol |
None
|
Growth protocol |
HepG2_protocol.pdf
|
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
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina Genome Analyzer |
|
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
|
|
|
Submission date |
Sep 28, 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 |
|
|
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 |
|
Relations |
SRA |
SRX100572 |
BioSample |
SAMN00738489 |
Named Annotation |
GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xRawRep1.bigWig |
Named Annotation |
GSM803527_hg19_wgEncodeHaibTfbsHepg2Usf1Pcr1xRawRep2.bigWig |