Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Neural

Cell type

NGP

NA

NA

Sample

source_name

NGP neuroblastoma cells

chip antibody

none

cell line

NGP

cell type

Neuroblastoma

mycn status

amplified

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were lysed in 5 pellet volumes of FA lysis buffer (50mM HEPES pH 7.5, 140mM NaCl, 1mM EDTA pH 8.0, 1.0% Triton-X-100, 0.1% SDS, 0.1% Deoxycholate), supplemented with fresh protease inhibitors and DTT. Beads were washed 3x in ChIP Wash Buffer (0.1% SDS,1.0% Tritotn-X-100, 2mM EDTA pH 8.0, 150mM NaCl, 20mM Tris-HCL pH8.0)and once with Final Wash Buffer (0.1% SDS, 1.0% Triton-X-100, 2mM EDTA pH8.0, 500mM NaCl, 20mM Tris-HCL pH 8.0) NEB Ultra manufacturer's instructions

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

97274005

Reads aligned (%)

97.1

Duplicates removed (%)

10.1

Number of peaks

2371 (qval < 1E-05)

hg19

Number of total reads

97274005

Reads aligned (%)

96.3

Duplicates removed (%)

11.8

Number of peaks

1790 (qval < 1E-05)