Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TWIST1

Cell type

Cell type Class
Liver
Cell type
PLC/PRF/5
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
Twist1-ChIP Control
cell line
PLC-PRF-5
chip antibody
Twist1 (Abcam, ab50887)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and Twist1-DNA or YY1-DNA complexes were isolated with antibody. Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
36579366
Reads aligned (%)
86.1
Duplicates removed (%)
10.0
Number of peaks
321 (qval < 1E-05)

hg38

Number of total reads
36579366
Reads aligned (%)
86.7
Duplicates removed (%)
9.9
Number of peaks
472 (qval < 1E-05)

Base call quality data from DBCLS SRA