Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GABPA

Cell type

Cell type Class
Blood
Cell type
THP-1
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
human monocytic cell line THP-1
cell line
THP-1
cell type
monocytic leukemia cells
chip antibody
GABP-a (Santa Cruz sc-28312 X)
treatment protocol
24 h 100 nM 1,25(OH)2D3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Proteins were crosslinked with formaldehyde to DNA, then GABPA-bound fragments were pulled down by chromatin immunoprecipitation ChIP-seq library was prepared from 5-10 ng ChIP DNA with the NEBNext Ultra II DNA Library Prep Kit (New England Biolabs) per manufacturer's protocol

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
25694054
Reads aligned (%)
87.2
Duplicates removed (%)
11.0
Number of peaks
1138 (qval < 1E-05)

hg38

Number of total reads
25694054
Reads aligned (%)
89.6
Duplicates removed (%)
9.5
Number of peaks
1067 (qval < 1E-05)

Base call quality data from DBCLS SRA