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Colocalization
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For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg38
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: SIN3A
wikigenes
PDBj
CellType: HCT 116
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX190361
GSM1010905: HudsonAlpha ChipSeq HCT-116 Sin3Ak-20 v042211.1
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
SIN3A
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
GSM1010905
antibody antibodydescription
Rabbit polyclonal, Sin3A (k-20). Antibody Target: SIN3AK20
antibody targetdescription
Co-repressor interacting with HDAC1, N-coR, SMRT, and MeCP2
antibody vendorid
sc-994
antibody vendorname
Santa Cruz Biotechnology
antibody
Sin3Ak-20
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
SL13076,SL12244
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
GSM1010905: HudsonAlpha_ChipSeq_HCT-116_Sin3Ak-20_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
hg19
Number of total reads
56513554
Reads aligned (%)
86.7
Duplicates removed (%)
6.5
Number of peaks
39384 (qval < 1E-05)
hg38
Number of total reads
56513554
Reads aligned (%)
87.5
Duplicates removed (%)
6.0
Number of peaks
39341 (qval < 1E-05)
Base call quality data from
DBCLS SRA