SRX100469
GSM803424: HudsonAlpha ChipSeq H1-hESC GABP PCR1x

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GABPA

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
H1-hESC
biomaterial_provider
WiCell Research Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
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
one 15-cycle round of PCR (Myers)
controlid
SL1398
labexpid
SL1660,SL1518
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Mouse monoclonal, GABPa(G-1), IgG1
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 Biotech
antibody vendorid
sc-28312
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR1x
protocol description
1-cycle of PCR (Myers)
controlid
SL1398
labexpid
SL1518
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803424: HudsonAlpha_ChipSeq_H1-hESC_GABP_PCR1x
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
59698055
Reads aligned (%)
78.5
Duplicates removed (%)
9.2
Number of peaks
17095 (qval < 1E-05)

hg19

Number of total reads
59698055
Reads aligned (%)
78.1
Duplicates removed (%)
10.0
Number of peaks
16892 (qval < 1E-05)

Base call quality data from DBCLS SRA