Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA2

Cell type

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

Attributes by original data submitter

Sample

source_name
FOXA2 ChIP A549
cell line
A549
chip antibody
FoxA2 Antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were generated as previously described (Mikkelsen et al., 2010, Gifford et al., 2013) and Libraries were sequenced on a HiSeq 2500 at 11pmol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
17335099
Reads aligned (%)
78.7
Duplicates removed (%)
17.5
Number of peaks
27922 (qval < 1E-05)

hg38

Number of total reads
17335099
Reads aligned (%)
79.8
Duplicates removed (%)
17.0
Number of peaks
27836 (qval < 1E-05)

Base call quality data from DBCLS SRA