Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ATF2

Cell type

Cell type Class
Blood
Cell type
GM12878
Tissue
blood
Lineage
mesoderm
Description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

Attributes by original data submitter

Sample

GEO Accession
GSM1010780
antibody antibodydescription
Mouse monoclonal IgG, raised against a recombinant protein corresponding to an internal region of ATF2 of human origin. Antibody Target: ATF2
antibody targetdescription
This gene encodes a transcription factor that is a member of the leucine zipper family of DNA binding proteins. This protein binds to the cAMP-responsive element (CRE), an octameric palindrome. The protein forms a homodimer or heterodimer with c-Jun and stimulates CRE-dependent transcription. The protein is also a histone acetyltransferase (HAT) that specifically acetylates histones H2B and H4 in vitro; thus it may represent a class of sequence-specific factors that activate transcription by direct effects on chromatin components. Additional transcript variants have been identified but their biological validity has not been determined. (provided by RefSeq)
antibody vendorid
sc-81188
antibody vendorname
Santa Cruz Biotechnology
antibody
ATF2_(SC-81188)
cell description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype
normal
cell lineage
mesoderm
cell organism
human
cell sex
F
cell
GM12878
controlid
SL6022
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL7561,SL7282
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
softwareversion
MACS
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010780: HudsonAlpha_ChipSeq_GM12878_ATF2_(SC-81188)_v042211.1
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
80638701
Reads aligned (%)
72.4
Duplicates removed (%)
8.6
Number of peaks
39073 (qval < 1E-05)

hg38

Number of total reads
80638701
Reads aligned (%)
73.6
Duplicates removed (%)
11.0
Number of peaks
38135 (qval < 1E-05)

Base call quality data from DBCLS SRA