Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

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
H3K4me1 (ab8895, Abcam)

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
21506343
Reads aligned (%)
95.2
Duplicates removed (%)
22.9
Number of peaks
1251 (qval < 1E-05)

hg19

Number of total reads
21506343
Reads aligned (%)
95.0
Duplicates removed (%)
23.2
Number of peaks
1259 (qval < 1E-05)

Base call quality data from DBCLS SRA