Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Uterus
Cell type
Endometriosis
MeSH Description
An enlarged area of ENDOMETRIOSIS that resembles a tumor. It is usually found in the OVARY. When it is filled with old blood, it is known as a chocolate cyst.

Attributes by original data submitter

Sample

source_name
Endometriosis
cell type
hTERT immortalized endometriosis cells
genotype/variation
Control
antibody
H3K4me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were fixed, lysed, and chromatin was sonicated. Histone-DNA complexes were isolated with antibody. Genomic DNA was isolated by standard phenol-chloroform extraction and ethanol precipitation Libraries were prepared according to Illumina's instructions and sequenced on either HiSeq-2000 or NextSeq 500 platforms.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
12395259
Reads aligned (%)
90.7
Duplicates removed (%)
7.4
Number of peaks
12301 (qval < 1E-05)

hg19

Number of total reads
12395259
Reads aligned (%)
88.7
Duplicates removed (%)
10.6
Number of peaks
12189 (qval < 1E-05)

Base call quality data from DBCLS SRA