SRX100473
GSM803428: HudsonAlpha ChipSeq H1-hESC Sin3Ak-20 PCR1x

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SIN3A

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
H1-hESC
biomaterial_provider
WiCell Research Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
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
SL1398
labexpid
SL1313,SL1157
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Rabbit polyclonal, Sin3A (k-20).
antibody targetdescription
Co-repressor interacting with HDAC1, N-coR, SMRT, and MeCP2
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
SL1398
labexpid
SL1157
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803428: HudsonAlpha_ChipSeq_H1-hESC_Sin3Ak-20_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

hg38

Number of total reads
48520029
Reads aligned (%)
78.2
Duplicates removed (%)
9.8
Number of peaks
14976 (qval < 1E-05)

hg19

Number of total reads
48520029
Reads aligned (%)
77.7
Duplicates removed (%)
11.0
Number of peaks
14697 (qval < 1E-05)

Base call quality data from DBCLS SRA