Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
KELLY
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
Input for DMSO KELLY
cell line
KELLY
cell type
Neuroblastoma
input
NA
treatment
0.1% DMSO for 3HR
growth protocol
10% FBS, DMEM
barcode
AGGTTGGG
antibody
NA
antibody maker
NA
antibody catalog number
NA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared using Tn5 enzyme and amplified using 2x NEBNext HiFi master mix. ChIPmentation (Schmidl et a., 2015; PMC4589892)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
50776772
Reads aligned (%)
98.4
Duplicates removed (%)
19.6
Number of peaks
1104 (qval < 1E-05)

hg19

Number of total reads
50776772
Reads aligned (%)
97.8
Duplicates removed (%)
20.3
Number of peaks
1002 (qval < 1E-05)

Base call quality data from DBCLS SRA