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 Met
cell line
PLC-PRF-5
treatment
600μM metformin for 48h
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
28565653
Reads aligned (%)
79.8
Duplicates removed (%)
11.0
Number of peaks
151 (qval < 1E-05)

hg38

Number of total reads
28565653
Reads aligned (%)
80.4
Duplicates removed (%)
10.9
Number of peaks
259 (qval < 1E-05)

Base call quality data from DBCLS SRA