Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ASCL1

Cell type

Cell type Class
Lung
Cell type
NCI-H889
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma Small Cell

Attributes by original data submitter

Sample

source_name
Tumor
cell line
H889
classification
SCLC
ascl1 expression
ASCL1high
antibody
mouse anti-ASCL1 antibody (BD Biosciences, cat# 556604)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For full ChIP protocol see Borromeo et al. Development. 2014. For extraction, nuclei were liberated from cells by dounce homogenization in PBS and then fixed in 1% formaldehyde for 10 minutes at room. temperature. Fixation was terminated by adding glycine to a final concentration of 0.125M. Chromatin was sheared by using a Diagenode Bioruptor for 30 minutes on high power with 30s:30s on:off cycles. 100 μg chromatin was immunoprecipitated with 5 μg affinity-purified mouse anti-ASCL1 antibody (BD Biosciences) followed by anti-mouse Dyna beads (Invitrogen). All libraries were made according to Illumina's or NEB (NEBNEXT) ChIP-seq DNA sample prep protocol

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg38

Number of total reads
17820319
Reads aligned (%)
82.7
Duplicates removed (%)
65.8
Number of peaks
12208 (qval < 1E-05)

hg19

Number of total reads
17820319
Reads aligned (%)
82.2
Duplicates removed (%)
66.7
Number of peaks
12210 (qval < 1E-05)

Base call quality data from DBCLS SRA