Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMARCA4

Cell type

Cell type Class
Lung
Cell type
NCI-H1299
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma Non-Small Cell

Attributes by original data submitter

Sample

source_name
H1299 Cell line
cell type
Human mammary epithelial cell line
chip-antibody
Brg1 antibody Abcam ab110641

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Histone-DNA complexes were isolated using antibodies described from -DOX and +DOX H1299 sonicated nuclei. Libraries for Illumina sequencing were generated following the New England BioLabs NEBNext Ultra DNA Library Prep Kit protocol. A total of 10x cycles were used during PCR amplification for the generation of all ChIP-seq libraries. Amplified ChIP DNA was purified using double-sided AMPure XP to retain fragments ~200 to 500bp and quantified using the Qubit 2000 and Bioanalyzer 1000 before multiplexing.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
112439297
Reads aligned (%)
38.5
Duplicates removed (%)
60.7
Number of peaks
1873 (qval < 1E-05)

hg38

Number of total reads
112439297
Reads aligned (%)
40.4
Duplicates removed (%)
59.0
Number of peaks
1984 (qval < 1E-05)

Base call quality data from DBCLS SRA