Antigen

Antigen Class

DNase-seq

Antigen

DNase-Seq

Cell type

Cell type Class

Digestive tract

Cell type

HCT 116

Primary Tissue

Colon

Tissue Diagnosis

Carcinoma

Sample

source_name

HCT116 colorectal cancer cells

experiment

Dnase-Hypersensitivity

treatment

No special treatment

replicate

2

Sequenced DNA Library

library_strategy

DNase-Hypersensitivity

library_source

GENOMIC

library_selection

DNase

library_construction_protocol

Digital DNaseI was performed by DNaseI digestion of intact nuclei, isolating DNaseI 'double-hit' fragments as described in Sabo et al. (2006), 20-50 ng of DNA was end-repaired, adenine ligated to Illumina adapters was added, and then a Solexa library was made for sequencing. 20-50 ng of ChIP DNA was end-repaired, adenine ligated to Illumina adapters was added, and then a Solexa library was made for sequencing.

Sequencing Platform

instrument_model

Illumina Genome Analyzer IIx

hg38

Number of total reads

52473046

Reads aligned (%)

97.7

Duplicates removed (%)

47.5

Number of peaks

67017 (qval < 1E-05)

hg19

Number of total reads

52473046

Reads aligned (%)

97.1

Duplicates removed (%)

48.9

Number of peaks

66990 (qval < 1E-05)