Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
USF1

Cell type

Cell type Class
Lung
Cell type
A549
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
A549
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
epithelial cell line derived from a lung carcinoma tissue. (PMID: 175022), "This line was initiated in 1972 by D.J. Giard, et al. through explant culture of lung carcinomatous tissue from a 58-year-old caucasian male." - ATCC, newly promoted to tier 2: not in 2011 analysis
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
treatment description
1 h with 100 nM Dexamethasone (Myers)
protocol description
one 15-cycle round of PCR (Myers)
controlid
SL474
labexpid
SL1206,SL1079
replicate
1,2
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
DEX_100nM
treatment description
1 h with 100 nM DEX (Myers)
protocol
PCR1x
protocol description
1-cycle of PCR (Myers)
controlid
SL474
labexpid
SL1079
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803457: HudsonAlpha_ChipSeq_A549_USF-1_DEX_100nM_PCR1x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
57812358
Reads aligned (%)
55.6
Duplicates removed (%)
14.6
Number of peaks
16433 (qval < 1E-05)

hg38

Number of total reads
57812358
Reads aligned (%)
56.6
Duplicates removed (%)
13.8
Number of peaks
15960 (qval < 1E-05)

Base call quality data from DBCLS SRA