Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMARCA2

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_BRM CHIP-seq in shNS
cell line
HepG2
cell type
liver cancer cell line
tranduced with
shNS
chip antibody
BRM (D9E8B) XP® Rabbit mAb
chip antibody vendor
Cell Signaling

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 0.3% formaldehyde for 30 minutes at 4 degrees prior to processing for ChIP using protocol from Raab et al 2015. Kapa DNA hyperpep kit

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
17884271
Reads aligned (%)
86.9
Duplicates removed (%)
1.8
Number of peaks
2078 (qval < 1E-05)

hg38

Number of total reads
17884271
Reads aligned (%)
87.9
Duplicates removed (%)
1.7
Number of peaks
2064 (qval < 1E-05)

Base call quality data from DBCLS SRA