Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ATF3

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
HCT116 colon cancer cells, ATF3-WT, ATF3 ChIP
cell line
HCT116
cell type
colon cancer cell line
genotype/variation
ATF3-WT
treatment
DMSO
chip antibody
ATF3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was sheared by sonication using Bioruptor to an average fragment size of 500 bp, immunoprecipitated using the indicated antibody, purified and sequenced using Illumina HiScanSQ following protocols recommended by the manufacturer. Libraries were prepared according to Illumina's instructions.

Sequencing Platform

instrument_model
Illumina HiScanSQ

hg19

Number of total reads
13884742
Reads aligned (%)
91.8
Duplicates removed (%)
2.2
Number of peaks
11783 (qval < 1E-05)

hg38

Number of total reads
13884742
Reads aligned (%)
92.8
Duplicates removed (%)
1.7
Number of peaks
11715 (qval < 1E-05)

Base call quality data from DBCLS SRA