Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
H1-hESC
biomaterial_provider
WiCell Research Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
antibody antibodydescription
Goat polyclonal IgG, epitope mapping at the N-terminus of CTCF of human origin. Antibody Target: CTCF
antibody targetdescription
This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. (provided by RefSeq)
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-5916
controlid
SL1398
labexpid
SL3067,SL2688
replicate
1,2
softwareversion
MACS
antibody
CTCF_(SC-5916)
antibody antibodydescription
Goat polyclonal IgG, epitope mapping at the N-terminus of CTCF of human origin.
antibody targetdescription
This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. (provided by RefSeq)
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-5916
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.2
protocol description
2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
controlid
SL1398
labexpid
SL2688
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803419: HudsonAlpha_ChipSeq_H1-hESC_CTCF_(SC-5916)_v041610.2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
135739637
Reads aligned (%)
58.7
Duplicates removed (%)
27.1
Number of peaks
61449 (qval < 1E-05)

hg38

Number of total reads
135739637
Reads aligned (%)
59.8
Duplicates removed (%)
26.1
Number of peaks
61911 (qval < 1E-05)

Base call quality data from DBCLS SRA