Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
USF1

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
H1-hESC
biomaterial_provider
WiCell Research Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
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
SL1398
labexpid
SL1319,SL1159
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Rabbit polyclonal, USF-1 (C-20).
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 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
SL1398
labexpid
SL1159
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803426: HudsonAlpha_ChipSeq_H1-hESC_USF-1_PCR1x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
40731488
Reads aligned (%)
77.7
Duplicates removed (%)
11.0
Number of peaks
38638 (qval < 1E-05)

hg38

Number of total reads
40731488
Reads aligned (%)
79.3
Duplicates removed (%)
9.8
Number of peaks
38706 (qval < 1E-05)

Base call quality data from DBCLS SRA