Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMARCA4

Cell type

Cell type Class
Neural
Cell type
BT-16
NA
NA

Attributes by original data submitter

Sample

source_name
ChIP-seq_BT16_Dox
cell line
BT16
cell type
brain rhabdoid tumor derived cell line
treatment/condition
Doxycycline induced SMARCB1 reexpresion
chip antibody
SMARCA4/BRG1 (Abcam, EPNCIR111A, ab110641)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. Libraries were prepared according to Illumina's instructions accompanying the TruSeq ChIP Sample Prep Kit (Cat.# IP-202-1012)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
35084470
Reads aligned (%)
89.1
Duplicates removed (%)
4.9
Number of peaks
14912 (qval < 1E-05)

hg38

Number of total reads
35084470
Reads aligned (%)
90.5
Duplicates removed (%)
4.1
Number of peaks
14508 (qval < 1E-05)

Base call quality data from DBCLS SRA