Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Lung

Cell type

NCI-H1299

Primary Tissue

Lung

Tissue Diagnosis

Carcinoma Non-Small Cell

Sample

source_name

H1299 Cell line

cell type

Human mammary epithelial cell line

chip-antibody

Input

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

hg38

Number of total reads

71023924

Reads aligned (%)

89.5

Duplicates removed (%)

5.1

Number of peaks

1236 (qval < 1E-05)

hg19

Number of total reads

71023924

Reads aligned (%)

88.8

Duplicates removed (%)

6.6

Number of peaks

1292 (qval < 1E-05)