Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Neural
Cell type
SH-SY5Y
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
SH(15M)_siCTL_K4me3_ChIP-seq
cell line
SH(15M)
cell type
chromosome duplication model of Dup15q syndrome
sirna
siCTL
genotype/variation
control knockdown
chip antibody
H3K4me3 (Active Motif 39159, LOT#GR288375-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
WGBS: Illumina TruSeq DNA Methylation Kit (Illumina EGMK81312) RNA-seq: NEB NEBNext rRNA Depletion Kit (NEB E6310L) and NEBNext Ultra Directional RNA Library Prep Kit for Illumina (NEB E7420S) ChIP-seq: KAPA Hyper Prep Kit (Kapa KK8504)

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
33410014
Reads aligned (%)
97.5
Duplicates removed (%)
18.6
Number of peaks
25313 (qval < 1E-05)

hg19

Number of total reads
33410014
Reads aligned (%)
96.7
Duplicates removed (%)
19.7
Number of peaks
25210 (qval < 1E-05)

Base call quality data from DBCLS SRA