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For hg38
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BigWig
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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)
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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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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: Input control
wikigenes
PDBj
CellType: Hep G2
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX100508
GSM803463: HudsonAlpha ChipSeq HepG2 RevXlinkChromatin v041610.1
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Input control
Antigen
Input control
Cell type
Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular
Attributes by original data submitter
Sample
source_name
HepG2
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
hepatocellular carcinoma
controlid
SL3976,SL1781
labexpid
SL3976,SL1781
replicate
1,2
cell description
liver carcinoma
cell karyotype
cancer
cell lineage
endoderm
cell sex
M
antibody
RevXlinkChromatin
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.1
protocol description
2x10^7 cells, fragmentation by bioruptor, one 15-cycle round of PCR (Myers)
controlid
SL1781
labexpid
SL1781
replicate
1
replicate description
tier 1
Sequenced DNA Library
library_name
GSM803463: HudsonAlpha_ChipSeq_HepG2_RevXlinkChromatin_v041610.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
Sequencing Platform
instrument_model
Illumina Genome Analyzer
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
74121972
Reads aligned (%)
92.9
Duplicates removed (%)
3.9
Number of peaks
1120 (qval < 1E-05)
hg19
Number of total reads
74121972
Reads aligned (%)
92.3
Duplicates removed (%)
5.0
Number of peaks
1249 (qval < 1E-05)
Base call quality data from
DBCLS SRA