Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GABPA

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

source_name
GM12878
biomaterial_provider
GM12878
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
antibody antibodydescription
Mouse monoclonal, GABPa(G-1), IgG1. Antibody Target: GABP
antibody targetdescription
The transcription factor GA-binding protein (GABP) is composed of two subunits, alpha and beta. Alpha binds to a specific DNA sequence.
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-28312
protocol description
a 25-cycle round of PCR and an additional 15-cycle round of PCR after gel size selection (Myers)
controlid
SL217,SL218
labexpid
SL203,SL205
labversion
PCR2x
labversion description
a 25-cycle round of PCR and an additional 15-cycle round of PCR after gel size selection (Myers)
replicate
1,2
softwareversion
MACS
antibody vendorid
sc-28312
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR2x
protocol description
2-cycles of PCR (Myers)
controlid
SL217
labexpid
SL203
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803356: HudsonAlpha_ChipSeq_GM12878_GABP_PCR2x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
79313423
Reads aligned (%)
40.5
Duplicates removed (%)
12.0
Number of peaks
8607 (qval < 1E-05)

hg38

Number of total reads
79313423
Reads aligned (%)
41.4
Duplicates removed (%)
12.0
Number of peaks
7912 (qval < 1E-05)

Base call quality data from DBCLS SRA