Toggle navigation
ChIP-Atlas
Peak Browser
Target Genes
Colocalization
Enrichment Analysis
Publications
Docs
Advanced
Go
Find By ID
Visualize
Install and launch IGV before selecting data to visualize
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Error connecting to IGV?
Analyze
For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg38
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: PTEN
wikigenes
PDBj
CellType: SMMC-7721
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX5416007
GSM3619374: s2-PTEN-L RRC03084; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
PTEN
Cell type
Cell type Class
Liver
Cell type
SMMC-7721
NA
NA
Attributes by original data submitter
Sample
source_name
hepatocellular
cell line
SMMC-7721
cell type
hepatocellular carcinoma cell line
infect
lentivirus
chip antibody
PTENα/β (a gift from Professor Yuxin Yin)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and isolated with antibody. RNA libraries were prepared for sequencing using standard Illumina protocols
Sequencing Platform
instrument_model
Illumina NovaSeq 6000
Where can I get the processing logs?
Read processing pipeline
log
hg19
Number of total reads
22252837
Reads aligned (%)
100.0
Duplicates removed (%)
43.7
Number of peaks
26921 (qval < 1E-05)
hg38
Number of total reads
22252837
Reads aligned (%)
103.5
Duplicates removed (%)
42.2
Number of peaks
27639 (qval < 1E-05)
Base call quality data from
DBCLS SRA