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_NoDox
cell line
BT16
cell type
brain rhabdoid tumor derived cell line
treatment/condition
untreated
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
19787589
Reads aligned (%)
92.8
Duplicates removed (%)
4.2
Number of peaks
1011 (qval < 1E-05)

hg38

Number of total reads
19787589
Reads aligned (%)
94.1
Duplicates removed (%)
3.5
Number of peaks
970 (qval < 1E-05)

Base call quality data from DBCLS SRA