Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
POU2F3

Cell type

Cell type Class
Lung
Cell type
NCI-H1048
Primary Tissue
Lung
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Carcinoma Small Cell

Attributes by original data submitter

Sample

source_name
Small cell lung cancer
cell line
NCI-H1048
cell type
Small cell lung cancer
treatment
exponentially growing cells with no infection
chip antibody
POU2F3 (Santa Cruz SC330)

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

hg19

Number of total reads
33103177
Reads aligned (%)
90.0
Duplicates removed (%)
7.7
Number of peaks
50164 (qval < 1E-05)

hg38

Number of total reads
33103177
Reads aligned (%)
91.3
Duplicates removed (%)
7.0
Number of peaks
50239 (qval < 1E-05)

Base call quality data from DBCLS SRA