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
SKOV3_wild type_input
cell line
SKOV3
cell type
Human epithelial ovarian cancer cell
genotype/variation
wild type

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For RNA-Seq,SKOV3 and SKOV3/sgEZH2 cells were harvested for RNA extraction using RNeasy mini kits (Qiagen). For ChIP-seq, SKOV3 and SKOV3/sgEZH2 cells were fixed and then lysed, and the chromatin was sheared to 200-500 bp in size using the Bioruptor sonicator (Diagenode). The chromatin was incubated with H3K27me3 antibody (Millipore 07-622) bound to protein G beads (Thermo Fisher) for overnight. After immunoprecipitation, samples were reversely crosslinked in 65°C water bath, and DNA was extracted with QIAquick PCR purification kit (Qiagen). RNA-Seq library preparation with KAPA Stranded mRNA-Seq Kit (Illumina® platform) and then sequenced using Illumina HiSeq 4000. The ChIP-Seq libraries were prepared using NEBNext® UltraTMII DNA (NEB E7645S) and then sequenced using Illumina HiSeq 2500.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
22335240
Reads aligned (%)
69.3
Duplicates removed (%)
11.3
Number of peaks
577 (qval < 1E-05)

hg19

Number of total reads
22335240
Reads aligned (%)
68.6
Duplicates removed (%)
11.5
Number of peaks
319 (qval < 1E-05)

Base call quality data from DBCLS SRA