Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
USF1

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
HepG2
biomaterial_provider
ATCC
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

Sequenced DNA Library

library_name
GSM803527: HudsonAlpha_ChipSeq_HepG2_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
100283093
Reads aligned (%)
47.5
Duplicates removed (%)
16.5
Number of peaks
33618 (qval < 1E-05)

hg38

Number of total reads
100283093
Reads aligned (%)
48.6
Duplicates removed (%)
15.3
Number of peaks
32935 (qval < 1E-05)

Base call quality data from DBCLS SRA