Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Uterus
Cell type
ECC-1
Primary Tissue
Uterus
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

GEO Accession
GSM1010774
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 vendorid
sc-5916
antibody vendorname
Santa Cruz Biotechnology
antibody
CTCF_(SC-5916)
cell description
epithelial cell line derived from an endometrium adenocarcinoma, fetal membranes were collected from women who underwent planned cesarean delivery at term, before labor and without rupture of membranes
cell karyotype
cancer
cell lineage
endoderm
cell organism
human
cell sex
F
cell
ECC-1
controlid
SL1882
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL3447,SL2630
protocol description
2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
protocol
v041610.2
replicate
1,2
softwareversion
MACS
treatment description
1 h with 0.02% Dimethyl sufloxide (DMSO) (Myers)
treatment
DMSO_0.02pct

Sequenced DNA Library

library_name
GSM1010774: HudsonAlpha_ChipSeq_ECC-1_CTCF_(SC-5916)_DMSO_0.02pct_v041610.2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
61554749
Reads aligned (%)
76.1
Duplicates removed (%)
11.3
Number of peaks
22762 (qval < 1E-05)

hg38

Number of total reads
61554749
Reads aligned (%)
77.7
Duplicates removed (%)
10.1
Number of peaks
22465 (qval < 1E-05)

Base call quality data from DBCLS SRA