Antigen

Antigen Class

TFs and others

Antigen

NKX2-1

Cell type

Cell type Class

Lung

Cell type

Small cell lung cancer

NA

NA

Sample

source_name

Small cell lung cancer

cell type

Cell line

antibody

NKX2-1 (Bethyl Laboratories, A300-BL4000)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For SOX1, NKX2-1 and H3K27ac ChIP, cells were cross-linked with 1% formaldehyde and lysed. Chromatin in the lysates was sonicated and histone-DNA complexes were isolated with antibodies. Up to 10 ng of DNA was used for the library construction using NEBNext Ultra II DNA Library Prep Kit. The finished double strand DNA libraries were quantified by Agilent Bioanalyzer according to manufacturer's protocol. Uniquely indexed libraries were pooled in equimolar ratios and sequenced on an Illumina NextSeq500 with paired-end 75bp reads.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

9975589

Reads aligned (%)

85.5

Duplicates removed (%)

4.9

Number of peaks

8197 (qval < 1E-05)

hg19

Number of total reads

9975589

Reads aligned (%)

84.5

Duplicates removed (%)

5.1

Number of peaks

8125 (qval < 1E-05)