Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA2

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
Goat polyclonal IgG, epitope mapping at the N-terminus of FOXA2 of human origin. Antibody Target: FOXA2
antibody targetdescription
The intronless gene for this transcription coactivator is located between the protocadherin beta and gamma gene clusters on chromosome 5. The protein encoded by this gene is a component of the TFIID protein complex, a complex which binds to the TATA box in class II promoters and recruits RNA polymerase II and other factors. This particular subunit interacts with the largest TFIID subunit, as well as multiple transcription activators. The protein is required for transcription by promoters targeted by RNA polymerase II. (provided by RefSeq)
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-6554
controlid
SL1781
labexpid
SL2196,SL3175
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Goat polyclonal IgG, epitope mapping at the N-terminus of FOXA2 of human origin.
antibody targetdescription
The intronless gene for this transcription coactivator is located between the protocadherin beta and gamma gene clusters on chromosome 5. The protein encoded by this gene is a component of the TFIID protein complex, a complex which binds to the TATA box in class II promoters and recruits RNA polymerase II and other factors. This particular subunit interacts with the largest TFIID subunit, as well as multiple transcription activators. The protein is required for transcription by promoters targeted by RNA polymerase II. (provided by RefSeq)
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-6554
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
SL1781
labexpid
SL2196
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803403: HudsonAlpha_ChipSeq_HepG2_FOXA2_(SC-6554)_v041610.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
93908985
Reads aligned (%)
48.0
Duplicates removed (%)
25.9
Number of peaks
69594 (qval < 1E-05)

hg38

Number of total reads
93908985
Reads aligned (%)
48.7
Duplicates removed (%)
25.2
Number of peaks
67450 (qval < 1E-05)

Base call quality data from DBCLS SRA