Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Blood
Cell type
GM13977
Tissue
blood
Lineage
mesoderm
Description
lymphoblastoid cell line, Clinically affected; microcephaly; low frontal hairline; synophris; "penciled" arched eyebrows; short nose; crescent shaped mouth; hirsutism; micromelia; short thumbs; mental retardation; clinically normal monozygotic twin sister is GM13976

Attributes by original data submitter

Sample

source_name
GM13977
biomaterial_provider
Coriell
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
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
controlid
wgEncodeEH003444
labversion
baseAlignCounts.pl v 1,p-value cutoff: 0.05,fseq v 1.84, iff_GM13977
replicate
1,2
cell sex
F
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
controlid
wgEncodeEH003444
labversion
baseAlignCounts.pl v 1
replicate
1

Sequenced DNA Library

library_name
GSM1006869: UT-A_ChipSeq_GM13977_CTCF
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
41723764
Reads aligned (%)
70.1
Duplicates removed (%)
16.2
Number of peaks
44987 (qval < 1E-05)

hg38

Number of total reads
41723764
Reads aligned (%)
71.8
Duplicates removed (%)
15.4
Number of peaks
43358 (qval < 1E-05)

Base call quality data from DBCLS SRA