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Colocalization
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For hg19
Colocalization
Target Genes (TSS ± 1kb)
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)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: SRF
wikigenes
PDBj
CellType: HCT 116
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX190307
GSM1010851: HudsonAlpha ChipSeq HCT-116 SRF v042211.1
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
SRF
Cell type
Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma
Attributes by original data submitter
Sample
GEO Accession
GSM1010851
antibody antibodydescription
Rabbit polyclonal. Antibody Target: SRF
antibody targetdescription
Serum response transcription factor
antibody vendorid
sc-335
antibody vendorname
Santa Cruz Biotechnology
antibody
SRF
cell description
colorectal carcinoma (PMID: 7214343)
cell karyotype
cancer
cell lineage
endoderm
cell organism
human
cell sex
M
cell
HCT-116
controlid
SL12247,SL12246
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL13070,SL12237
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
GSM1010851: HudsonAlpha_ChipSeq_HCT-116_SRF_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
54245089
Reads aligned (%)
91.9
Duplicates removed (%)
6.1
Number of peaks
36113 (qval < 1E-05)
hg19
Number of total reads
54245089
Reads aligned (%)
91.5
Duplicates removed (%)
6.7
Number of peaks
36076 (qval < 1E-05)
Base call quality data from
DBCLS SRA