Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Liver
Cell type
Hep 3B
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
HCC
genotype/variation
FBP1 S169A
cell type
Liver cancer cell
passages
10-15
cell line
Hep3B

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody (EZH2 and H3K27me3) or streptavidin beads (FBP1-avi). Illumina sequencing libraries were prepared from ChIP and input DNAs by performing standard consecutive enzymatic steps of end-polishing, dA-addition, and adaptor ligation (NEBNext® Ultra™ II DNA Library Prep, NEB, E7103).

Sequencing Platform

instrument_model
HiSeq X Ten

hg38

Number of total reads
48399667
Reads aligned (%)
93.5
Duplicates removed (%)
9.6
Number of peaks
2105 (qval < 1E-05)

hg19

Number of total reads
48399667
Reads aligned (%)
92.2
Duplicates removed (%)
10.0
Number of peaks
488 (qval < 1E-05)

Base call quality data from DBCLS SRA