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For hg19
Colocalization
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For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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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: CTCF
wikigenes
PDBj
CellType: HMEC
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX199859
GSM1022631: UW ChipSeq HMEC CTCFRep2
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
CTCF
Cell type
Cell type Class
Breast
Cell type
HMEC
Primary Tissue
Breast
Tissue Diagnosis
Normal
Attributes by original data submitter
Sample
source_name
HMEC
biomaterial_provider
Lonza
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HMEC
cell organism
human
cell description
mammary epithelial cells
cell karyotype
normal
cell lineage
ectoderm
cell sex
U
antibody
CTCF
antibody antibodydescription
Rabbit polyclonal. Antibody Target: CTCF
antibody targetdescription
CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendorname
Millipore
antibody vendorid
07-729
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000466
labexpid
DS18569
labversion
Hotspot-v5.2,lmax-v1.0,WindowDensity-bin20-win+/-75
replicate
2
Sequenced DNA Library
library_name
GSM1022631: UW_ChipSeq_HMEC_CTCFRep2
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
hg19
Number of total reads
22726706
Reads aligned (%)
67.1
Duplicates removed (%)
11.7
Number of peaks
42202 (qval < 1E-05)
hg38
Number of total reads
22726706
Reads aligned (%)
68.2
Duplicates removed (%)
10.9
Number of peaks
42246 (qval < 1E-05)
Base call quality data from
DBCLS SRA