Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ZNF165

Cell type

Cell type Class
Breast
Cell type
WHIM12
NA
NA

Attributes by original data submitter

Sample

source_name
breast cancer tumor derived cell line stably expressing ZNF165-V5
tumor type
TNBC
cell line
WHIM12 stably expressing ZNF165-V5
chip antibody
Polyclonal V5 Antibody (Abcam, catalog# 9116)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei from WHIM12 cells stably expressing control or ZNF165-V5 were isolated, sonicated and immunopreciptated with V5 antibody. 5 ng of ChIP-ed DNA underwent library preparation using the KAPA HTP Library Preparation Kit. ChIP-ed DNA was end repaired, 3’ end adenylated and barcoded with multiplex adaptors. Ampure XP beads were used to purify DNA. Library size was assessed using the Agilent 2100 Bioanalyzer. The Invitrogen Qubit® Fluorometer was then used to quantify samples prior to normalizing and pooling.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
34872750
Reads aligned (%)
84.7
Duplicates removed (%)
11.9
Number of peaks
974 (qval < 1E-05)

hg38

Number of total reads
34872750
Reads aligned (%)
86.6
Duplicates removed (%)
10.6
Number of peaks
1098 (qval < 1E-05)

Base call quality data from DBCLS SRA