Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR2C2

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
lab
USC
lab description
Farnham - University of Southern California
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HepG2
cell organism
human
cell description
hepatocellular carcinoma
cell karyotype
cancer
cell lineage
endoderm
cell sex
M
treatment
None
treatment description
No special treatment or protocol applies
antibody
TR4
antibody antibodydescription
Rabbit polyclonal. Antibody Target: TR4
antibody targetdescription
(Also: NR2C2) Members of the nuclear hormone receptor family, such as NR2C2, act as ligand-activated transcription factors. The proteins have an N-terminal transactivation domain, a central DNA-binding domain with 2 zinc fingers, and a ligand-binding domain at the C terminus.
antibody vendorname
Donated by Dr. J.D.Engel, University of Michigan
antibody vendorid
TR4
control
UCDavis
control description
Input library was prepared at UC Davis.
control
UCDavis
control description
Input library was prepared at UC Davis.
controlid
wgEncodeEH000674
labversion
Fragmented using Bioruptor, precipitated with protein A agarose beads, PeakSeq 1.0 (fdr 0.001) Illumina 2.0, low confidence sequences excluded
replicate
1

Sequenced DNA Library

library_name
GSM935596: USC_ChipSeq_HepG2_TR4_UCDavis
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
27150852
Reads aligned (%)
80.7
Duplicates removed (%)
3.9
Number of peaks
2770 (qval < 1E-05)

hg38

Number of total reads
27150852
Reads aligned (%)
82.1
Duplicates removed (%)
3.1
Number of peaks
2707 (qval < 1E-05)

Base call quality data from DBCLS SRA