Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Neural
Cell type
Medullo
Tissue
brain
Lineage
ectoderm
Description
medulloblastoma (aka D721), surgical resection from a patient with medulloblastoma as described by Darrell Bigner (1997)

Attributes by original data submitter

Sample

source_name
Medullo
biomaterial_provider
Dr. Darrell Bigner at Duke University Medical Center
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
wgEncodeEH003441
labversion
baseAlignCounts.pl v 1,p-value cutoff: 0.05,fseq v 1.84, iff_D721
replicate
1,2
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
controlid
wgEncodeEH003441
labversion
baseAlignCounts.pl v 1

Sequenced DNA Library

library_name
GSM1006893: UT-A_ChipSeq_Medullo_CTCF
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
41353598
Reads aligned (%)
71.7
Duplicates removed (%)
19.5
Number of peaks
47744 (qval < 1E-05)

hg38

Number of total reads
41353598
Reads aligned (%)
72.8
Duplicates removed (%)
18.8
Number of peaks
46766 (qval < 1E-05)

Base call quality data from DBCLS SRA