Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Lung
Cell type
DMS 79
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma Small Cell

Attributes by original data submitter

Sample

source_name
Small cell lung cancer
cell line
DMS79
cell type
Small cell lung cancer
treatment
exponentially growing cells with no infection
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cell lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared using Illumina TruSeq ChIP Sample Prep kit following manufacture's protocol. Briefly, ChIP DNA was end-repaired, 3'-adenylated, and then ligated with indexed adaptor. These DNA was size selected (200-400 bp) via agarose gel electrophoresis, and PCR amplified. Final products were purified using AMPure XP beads.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
52038448
Reads aligned (%)
93.4
Duplicates removed (%)
5.6
Number of peaks
1828 (qval < 1E-05)

hg19

Number of total reads
52038448
Reads aligned (%)
92.5
Duplicates removed (%)
7.3
Number of peaks
1229 (qval < 1E-05)

Base call quality data from DBCLS SRA