SRX199890
GSM1022662: UW ChipSeq HAc CTCFRep2

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Neural
Cell type
HAc
Tissue
cerebellar
Lineage
ectoderm
Description
astrocytes-cerebellar

Attributes by original data submitter

Sample

source_name
HAc
biomaterial_provider
ScienCell
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HAc
cell organism
human
cell description
astrocytes-cerebellar
cell karyotype
normal
cell lineage
ectoderm
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
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH002165
labexpid
DS18312
labversion
Hotspot-v5.2,lmax-v1.0,WindowDensity-bin20-win+/-75
replicate
2

Sequenced DNA Library

library_name
GSM1022662: UW_ChipSeq_HAc_CTCFRep2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
30096273
Reads aligned (%)
92.1
Duplicates removed (%)
11.8
Number of peaks
42261 (qval < 1E-05)

hg19

Number of total reads
30096273
Reads aligned (%)
91.4
Duplicates removed (%)
13.0
Number of peaks
42224 (qval < 1E-05)

Base call quality data from DBCLS SRA