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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: CTCF
wikigenes
PDBj
CellType: A-375
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX5525074
GSM3671692: CTCF ChIPSeq; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
CTCF
Cell type
Cell type Class
Epidermis
Cell type
A-375
Primary Tissue
Skin
Tissue Diagnosis
Melanoma
Attributes by original data submitter
Sample
source_name
melanoma cell line
tissue
skin
cell type
melanoma cells
antibody
CTCF antibody (Cell Signaling Technology; #3418)
cell line
A375
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was sheared to around 150bp to 600bp using Covaris E220 machine and incubated with 6ul CTCF antibody (Cell Signaling Technology; #3418) overnight at 4°C with rotation. ChIP library was constructed using KAPA HTP library prep kit
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
44844911
Reads aligned (%)
90.5
Duplicates removed (%)
54.4
Number of peaks
8672 (qval < 1E-05)
hg19
Number of total reads
44844911
Reads aligned (%)
89.7
Duplicates removed (%)
55.7
Number of peaks
8506 (qval < 1E-05)
Base call quality data from
DBCLS SRA