Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Kidney
Cell type
G-401
Primary Tissue
Kidney
Tissue Diagnosis
Wilms' tumor

Attributes by original data submitter

Sample

source_name
ChIPseq_BRD9KO_G401
cell line
G401
cell type
kidney rhabdoid tumor derived cell line
genotype/variation
BRD9KO
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was fragmented the adaptive focused acoustics (AFA) technology developed by Covaris for the cell lines. 5-10ng of ChIP DNA is used for library prep using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina®

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
21342372
Reads aligned (%)
98.2
Duplicates removed (%)
4.4
Number of peaks
705 (qval < 1E-05)

hg19

Number of total reads
21342372
Reads aligned (%)
97.4
Duplicates removed (%)
5.6
Number of peaks
728 (qval < 1E-05)

Base call quality data from DBCLS SRA