Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RXRA

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
RXRa(D-20) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the N-terminus of RXRalpha of human origin. Recommended for detection of RXRalpha of m, r and h origin by WB, IP, IF, IHC(P) and ELISA. Antibody Target: RXRA
antibody targetdescription
Retinoid X receptors (RXRs) and retinoic acid receptors (RARs), are nuclear receptors that mediate the biological effects of retinoids by their involvement in retinoic acid-mediated gene activation. These receptors exert their action by binding, as homodimers or heterodimers, to specific sequences in the promoters of target genes and regulating their transcription. The protein encoded by this gene is a member of the steroid and thyroid hormone receptor superfamily of transcriptional regulators.
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-553
protocol description
one 15-cycle round of PCR (Myers)
controlid
SL819,SL593
labexpid
SL1054,SL984
labversion
SL1054,SL984
replicate
1,2
softwareversion
MACS
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-553
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR1x
protocol description
1-cycle of PCR (Myers)
controlid
SL593
labexpid
SL984
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803452: HudsonAlpha_ChipSeq_HepG2_RXRA_PCR1x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
77763127
Reads aligned (%)
45.5
Duplicates removed (%)
14.0
Number of peaks
24857 (qval < 1E-05)

hg38

Number of total reads
77763127
Reads aligned (%)
46.7
Duplicates removed (%)
12.8
Number of peaks
24992 (qval < 1E-05)

Base call quality data from DBCLS SRA