SRX100499
GSM803454: HudsonAlpha ChipSeq HeLa-S3 GABP PCR1x

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GABPA

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
HeLa-S3
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell lineage
ectoderm
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
SL592
labexpid
SL611,SL610
labversion
SL611,SL610
replicate
1,2
softwareversion
MACS
antibody vendorid
sc-28312
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR1x
protocol description
1-cycle of PCR (Myers)
controlid
SL592
labexpid
SL610
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803454: HudsonAlpha_ChipSeq_HeLa-S3_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

hg19

Number of total reads
70838605
Reads aligned (%)
59.8
Duplicates removed (%)
6.6
Number of peaks
8283 (qval < 1E-05)

hg38

Number of total reads
70838605
Reads aligned (%)
60.3
Duplicates removed (%)
5.5
Number of peaks
8274 (qval < 1E-05)

Base call quality data from DBCLS SRA