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Install and launch IGV before selecting data to visualize
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)
Error connecting to IGV?
Analyze
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: Caki-1
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX1268857
GSM1889909: caki H3K4me3 millipore 1; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K4me3
Cell type
Cell type Class
Kidney
Cell type
Caki-1
Primary Tissue
Kidney
Tissue Diagnosis
Adenocarcinoma Clear Cell
Attributes by original data submitter
Sample
source_name
caki-1 cell line
tissue
kidney; Derived from metastatic site - skin
cell line
caki-1
chip antibody
H3K4me3
chip antibody provider
Millipore
chip antibody catalog
07-473
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
CHIP followed by phenol/chloroform extraction and EtOH precipitation. TruSeq ChIP Sample Prep Kit, Illumina
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
10823630
Reads aligned (%)
92.3
Duplicates removed (%)
5.0
Number of peaks
14791 (qval < 1E-05)
hg19
Number of total reads
10823630
Reads aligned (%)
91.3
Duplicates removed (%)
5.1
Number of peaks
14601 (qval < 1E-05)
Base call quality data from
DBCLS SRA