Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
DDX11

Cell type

Cell type Class
Lung
Cell type
A549
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
A549 cells_anti-DDX11_CONCR_KD
cell line
A549
knockdown
CONCR KD

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For the ChIP, cells were cross-linked with 1% formaldehyde and chromatin prepared by sonication to obtain DNA fragments between 100 bp and 500 bp. DDX11 bound DNA was then immunoprecipitated using the anti-DDX11 antibody (ab66971, Abcam), decrosslinked and extracted for analysis by sequencing Libraries were prepared using the NEBNext Ultra DNA Library Prep Kit (Illumina)

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
54930757
Reads aligned (%)
58.4
Duplicates removed (%)
40.0
Number of peaks
1077 (qval < 1E-05)

hg38

Number of total reads
54930757
Reads aligned (%)
60.4
Duplicates removed (%)
38.4
Number of peaks
1345 (qval < 1E-05)

Base call quality data from DBCLS SRA