Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Digestive tract
Cell type
Caco-2
Primary Tissue
Colon
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
colon cancer cells
cell line
caco-2
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross-linked in 1% formalin and were sonicated in SDS-lysis buffer. Chromatin was precipitated in ChIP dilution buffer using an anti-H3K27ac antibody. DNA was purified by phenol and chloroform extraction and ethanol precipitation. Libraries were prepared according to Illumina's instructions. Libraries were sequenced using Illumina HiSeq4000.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
22331844
Reads aligned (%)
98.4
Duplicates removed (%)
11.2
Number of peaks
669 (qval < 1E-05)

hg19

Number of total reads
22331844
Reads aligned (%)
97.6
Duplicates removed (%)
12.7
Number of peaks
840 (qval < 1E-05)

Base call quality data from DBCLS SRA