Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RFX5

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
Stanford
lab description
Snyder - Stanford University
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
RFX5_(200-401-194)
antibody antibodydescription
Rabbit polyclonal against RFX5 peptide corresponding to a region at amino acids 320 to 494 of the human protein conjugated to Keyhole Limpet Hemocyanin. Antibody Target: RFX5
antibody targetdescription
Activates transcription from class II MHC promoters. Recognizes X-boxes. Mediates cooperative binding betweenRFX and NF-Y. RFX binds the X1 box of MHC-II promoters
antibody vendorname
Rockland Immunochemicals
antibody vendorid
200-401-194
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
controlid
wgEncodeEH001791
replicate
1

Sequenced DNA Library

library_name
GSM935304: Stanford_ChipSeq_HepG2_RFX5_(200-401-194)_IgG-rab
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
59978839
Reads aligned (%)
82.7
Duplicates removed (%)
7.7
Number of peaks
8358 (qval < 1E-05)

hg38

Number of total reads
59978839
Reads aligned (%)
84.6
Duplicates removed (%)
6.3
Number of peaks
8478 (qval < 1E-05)

Base call quality data from DBCLS SRA