Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Gonad
Cell type
SK-OV-3
Primary Tissue
Ovary
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Ovarian cancer cell line
cell line
SKOV3
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were constructed from the ChIP-DNA using Illumina TruSeq ChIP Sample Prep kit (IP-202-1012), with 15 to 18 cycles of PCR amplification. DNA size selection was performed using AMPure XP beads.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
44516504
Reads aligned (%)
98.1
Duplicates removed (%)
8.3
Number of peaks
1530 (qval < 1E-05)

hg19

Number of total reads
44516504
Reads aligned (%)
97.2
Duplicates removed (%)
9.9
Number of peaks
1247 (qval < 1E-05)

Base call quality data from DBCLS SRA