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
31792480
Reads aligned (%)
65.5
Duplicates removed (%)
13.7
Number of peaks
240 (qval < 1E-05)

hg38

Number of total reads
31792480
Reads aligned (%)
66.2
Duplicates removed (%)
13.5
Number of peaks
460 (qval < 1E-05)

Base call quality data from DBCLS SRA