Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HIC1

Cell type

Cell type Class
Blood
Cell type
iTreg
NA
NA

Attributes by original data submitter

Sample

source_name
human iTreg cells
tissue
cord blood
cell type
iTreg cells
antibody
HIC-1 antibody (Santa Cruz, sc-271499)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and HIC1 protein-DNA complexes were isolated with antibody. The DNA libraries were prepared as per the guidelines from Illumina by Fasteris Life Sciences (Plan-les-Ouates, Switzerland). Input DNA was sequenced and used as a control. DNA libraries were se-quenced on Illumina HiSeq2500 producing from 25 to 35 million reads per sample. The 50 nucleotide reads were aligned to hg19 build of human reference genome using bowtie2 (version 2.2.9)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
31025336
Reads aligned (%)
58.5
Duplicates removed (%)
35.6
Number of peaks
12584 (qval < 1E-05)

hg38

Number of total reads
31025336
Reads aligned (%)
59.6
Duplicates removed (%)
34.8
Number of peaks
12484 (qval < 1E-05)

Base call quality data from DBCLS SRA