Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HNF4A

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 IgG, epitope corresponding to a.a. 295-465 mapping at the C-terminus of HNF4A of human origin. Antibody Target: HNF4A
antibody targetdescription
The protein encoded by this gene is a nuclear transcription factor which binds DNA as a homodimer. The encoded protein controls the expression of several genes, including hepatocyte nuclear factor 1 alpha, a transcription factor which regulates the expression of several hepatic genes (RefSeq).
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-8987
controlid
SL1400,SL1781
labexpid
SL1481,SL2125
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Rabbit polyclonal IgG, epitope corresponding to a.a. 295-465 mapping at the C-terminus of HNF4A of human origin.
antibody targetdescription
The protein encoded by this gene is a nuclear transcription factor which binds DNA as a homodimer. The encoded protein controls the expression of several genes, including hepatocyte nuclear factor 1 alpha, a transcription factor which regulates the expression of several hepatic genes (RefSeq).
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-8987
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
SL1400
labexpid
SL1481
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803460: HudsonAlpha_ChipSeq_HepG2_HNF4A_(SC-8987)_v041610.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
43207529
Reads aligned (%)
36.1
Duplicates removed (%)
31.8
Number of peaks
35972 (qval < 1E-05)

hg38

Number of total reads
43207529
Reads aligned (%)
36.6
Duplicates removed (%)
31.3
Number of peaks
35935 (qval < 1E-05)

Base call quality data from DBCLS SRA