Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SIX5

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
Six5 (K-20) Goat polyclonal IgG, 200?g/ml. Epitope mapping near the C-terminus of Six5 of human origin. Recommended for detection of Six5 of human origin by WB, IF and ELISA. Antibody Target: SIX5
antibody targetdescription
The protein encoded by this gene is a homeodomain-containing transcription factor that appears to function in the regulation of organogenesis. This gene is located downstream of the dystrophia myotonica-protein kinase gene. Mutations in this geneare a cause of branchiootorenal syndrome type 2.
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-55706
protocol description
one 15-cycle round of PCR (Myers)
controlid
SL1398
labexpid
SL1162,SL1317
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Six5 (K-20) Goat polyclonal IgG, 200?g/ml. Epitope mapping near the C-terminus of Six5 of human origin. Recommended for detection of Six5 of human origin by WB, IF and ELISA
antibody targetdescription
The protein encoded by this gene is a homeodomain-containing transcription factor that appears to function in the regulation of organogenesis. This gene is located downstream of the dystrophia myotonica-protein kinase gene. Mutations in this geneare a cause of branchiootorenal syndrome type 2.
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-55706
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR1x
protocol description
1-cycle of PCR (Myers)
controlid
SL1398
labexpid
SL1162
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803405: HudsonAlpha_ChipSeq_H1-hESC_SIX5_PCR1x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
47568330
Reads aligned (%)
66.9
Duplicates removed (%)
15.3
Number of peaks
3882 (qval < 1E-05)

hg38

Number of total reads
47568330
Reads aligned (%)
68.4
Duplicates removed (%)
13.9
Number of peaks
3915 (qval < 1E-05)

Base call quality data from DBCLS SRA