Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

GEO Accession
GSM1010820
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
leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC
cell karyotype
cancer
cell lineage
mesoderm
cell organism
human
cell sex
F
cell
K562
controlid
SL1396,SL1397
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL3075,SL5605
protocol description
one 15-cycle round of PCR (Myers)
protocol
PCR1x
replicate
1,2
softwareversion
MACS
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010820: HudsonAlpha_ChipSeq_K562_CTCF_(SC-5916)_PCR1x
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
55971147
Reads aligned (%)
55.6
Duplicates removed (%)
33.0
Number of peaks
48541 (qval < 1E-05)

hg38

Number of total reads
55971147
Reads aligned (%)
56.6
Duplicates removed (%)
32.1
Number of peaks
48740 (qval < 1E-05)

Base call quality data from DBCLS SRA