Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SIN3A

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
HepG2
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
hepatocellular carcinoma
antibody antibodydescription
Rabbit polyclonal, Sin3A (k-20). Antibody Target: SIN3AK20
antibody targetdescription
Co-repressor interacting with HDAC1, N-coR, SMRT, and MeCP2
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-994
protocol description
one 15-cycle round of PCR (Myers)
controlid
SL593
labexpid
SL637,SL583
labversion
SL637
replicate
1,2
softwareversion
MACS
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-994
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR1x
protocol description
1-cycle of PCR (Myers)
controlid
SL593
labexpid
SL583
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803530: HudsonAlpha_ChipSeq_HepG2_Sin3Ak-20_PCR1x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
82768895
Reads aligned (%)
53.1
Duplicates removed (%)
12.4
Number of peaks
24714 (qval < 1E-05)

hg38

Number of total reads
82768895
Reads aligned (%)
54.3
Duplicates removed (%)
11.2
Number of peaks
24720 (qval < 1E-05)

Base call quality data from DBCLS SRA