Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ARID1A

Cell type

Cell type Class
Others
Cell type
12Z
NA
NA

Attributes by original data submitter

Sample

source_name
12Z cell line
cell line
12Z endometriotic epithelial cells
genotype
wild-type
chip antibody
ARID1A antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were scraped in PBS, and 1x10^7 cells were used per IP. Crosslinked chromatin was digested with MNase using the SimpleChIP Enzymatic Chromatin IP Kit (Cell Signaling) followed by 30 seconds of sonication. ChIP was performed with the SimpleChIP Enzymatic Chromatin IP Kit with 1:100 anti-ARID1A (12354, Cell Signaling). DNA was purified using the ChIP DNA Clean & Concentrator Kit (Zymo). Libraries were prepared from 10 ng of input material and all IP material using the KAPA Hyper Prep Kit (v5.16) (Kapa Biosystems). Libraries were pooled and sequenced to 75 bp single-end reads on an Illumina NextSeq 500.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
58149490
Reads aligned (%)
84.6
Duplicates removed (%)
11.2
Number of peaks
23516 (qval < 1E-05)

hg38

Number of total reads
58149490
Reads aligned (%)
88.1
Duplicates removed (%)
8.9
Number of peaks
24113 (qval < 1E-05)

Base call quality data from DBCLS SRA