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For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: H3K4me3
wikigenes
PDBj
CellType: SH-SY5Y
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX3146567
GSM2760300: k4me3 ctlsh 1 [JLSL037]; Homo sapiens; ChIP-Seq
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-SY5Y_siCTL_K4me3_ChIP-seq
cell line
SH-SY5Y
cell type
neuronal cell line
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
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
40582841
Reads aligned (%)
99.2
Duplicates removed (%)
21.9
Number of peaks
598 (qval < 1E-05)
hg19
Number of total reads
40582841
Reads aligned (%)
98.8
Duplicates removed (%)
22.4
Number of peaks
756 (qval < 1E-05)
Base call quality data from
DBCLS SRA