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Colocalization
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For hg19
Colocalization
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Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
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Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: GABPA
wikigenes
PDBj
CellType: MCF-7
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX190320
GSM1010864: HudsonAlpha ChipSeq MCF-7 GABP v042211.1
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
GABPA
Cell type
Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma
Attributes by original data submitter
Sample
GEO Accession
GSM1010864
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 vendorid
sc-28312
antibody vendorname
Santa Cruz Biotechnology
antibody
GABP
cell description
mammary gland, adenocarcinoma. (PMID: 4357757), newly promoted to tier 2: not in 2011 analysis
cell karyotype
cancer
cell lineage
ectoderm
cell organism
human
cell sex
F
cell
MCF-7
controlid
SL16758,SL13504
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL14683,SL13459
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
GSM1010864: HudsonAlpha_ChipSeq_MCF-7_GABP_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
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
65149875
Reads aligned (%)
78.0
Duplicates removed (%)
18.5
Number of peaks
16614 (qval < 1E-05)
hg19
Number of total reads
65149875
Reads aligned (%)
77.6
Duplicates removed (%)
19.5
Number of peaks
16578 (qval < 1E-05)
Base call quality data from
DBCLS SRA