Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Hela cells
cell line
HeLa
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin input was prepeared by the combination of MNase treatment and sonication, and the chromatin associated with histone modification was isolated using indicated antibody. Libraries were prepared using ThruPLEX® DNA-seq Kit V2 (Rubicon Genomics, Ann Arbor, MI) according to the manufacturer’s instructions. The adapter-ligated DNA was PCR amplified for 12 cycles.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
51040698
Reads aligned (%)
99.3
Duplicates removed (%)
6.4
Number of peaks
143 (qval < 1E-05)

hg19

Number of total reads
51040698
Reads aligned (%)
97.2
Duplicates removed (%)
7.1
Number of peaks
339 (qval < 1E-05)

Base call quality data from DBCLS SRA