Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
Neuro-2a
Tissue
Brain
Cell Type
Neuroblast
Disease
Neuroblastoma

Attributes by original data submitter

Sample

source_name
Neuroblastoma cells
cell line
Neuro-2A cells
chip antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Approximately 2x10^7 N2A cells per ChIP were double cross-linked, first using 2 mM disuccinimidyl glutarate (DSG) for 45 min at room temperature, followed by 1% formaldehyde for 15 min at room temperature. 5 ug anti-KAP1 (ab10483, Abcam) antibody was used for IP. Chromatin was sheared to approximately 200 bp using a Bioruptor Pico (Diagenode) and ChIP DNA and matched input DNA from two independent KAP1 ChIP experiments were sequenced on an Illumina HiSeq 4000 (150 bp paired-end sequencing).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
43395518
Reads aligned (%)
90.4
Duplicates removed (%)
14.4
Number of peaks
299 (qval < 1E-05)

mm9

Number of total reads
43395518
Reads aligned (%)
90.3
Duplicates removed (%)
14.3
Number of peaks
275 (qval < 1E-05)

Base call quality data from DBCLS SRA