Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NEUROD1

Cell type

Cell type Class
Lung
Cell type
NCI-H524
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma Small Cell

Attributes by original data submitter

Sample

source_name
Tumor
cell line
H524
classification
SCLC
ascl1 expression
NEUROD1high
antibody
goat anti-NEUROD1 (Santa Cruz, N-19)

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

hg19

Number of total reads
48256611
Reads aligned (%)
72.1
Duplicates removed (%)
23.7
Number of peaks
7396 (qval < 1E-05)

hg38

Number of total reads
48256611
Reads aligned (%)
73.7
Duplicates removed (%)
22.6
Number of peaks
7180 (qval < 1E-05)

Base call quality data from DBCLS SRA