Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NANOG

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 IgG, epitope corresponding to amino acids 151-305 mapping at the C-terminus of Nanog of human origin. Antibody Target: NANOG
antibody targetdescription
Transcription regulator involved in inner cell mass and embryonic stem (ES) cells proliferation and self-renewal. Imposes pluripotency on ES cells and prevents their differentiation towards extraembryonic endoderm and trophectoderm lineages. Blocks bone morphogenetic protein-induced mesoderm differentiation of ES cells by physically interacting with SMAD1 and interfering with the recruitment of coactivators to the active SMAD transcriptional complexes (By similarity). Acts as a transcriptional activator or repressor (By similarity). Binds optimally to the DNA consensus sequence 5'-TAAT[GT][GT]-3' or 5'-[CG][GA][CG]C[GC]ATTAN[GC]-3' (By similarity). When overexpressed, promotes cells to enter into S phase and proliferation (By similarity) (provided by RefSeq).
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-33759
controlid
SL1398
labexpid
SL2687,SL3068
replicate
1,2
softwareversion
MACS
antibody
NANOG_(SC-33759)
antibody antibodydescription
Rabbit polyclonal IgG, epitope corresponding to amino acids 151-305 mapping at the C-terminus of Nanog of human origin.
antibody targetdescription
Transcription regulator involved in inner cell mass and embryonic stem (ES) cells proliferation and self-renewal. Imposes pluripotency on ES cells and prevents their differentiation towards extraembryonic endoderm and trophectoderm lineages. Blocks bone morphogenetic protein-induced mesoderm differentiation of ES cells by physically interacting with SMAD1 and interfering with the recruitment of coactivators to the active SMAD transcriptional complexes (By similarity). Acts as a transcriptional activator or repressor (By similarity). Binds optimally to the DNA consensus sequence 5'-TAAT[GT][GT]-3' or 5'-[CG][GA][CG]C[GC]ATTAN[GC]-3' (By similarity). When overexpressed, promotes cells to enter into S phase and proliferation (By similarity) (provided by RefSeq).
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-33759
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.2
protocol description
2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
controlid
SL1398
labexpid
SL2687
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803437: HudsonAlpha_ChipSeq_H1-hESC_NANOG_(SC-33759)_v041610.2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
79036513
Reads aligned (%)
35.5
Duplicates removed (%)
48.8
Number of peaks
17469 (qval < 1E-05)

hg38

Number of total reads
79036513
Reads aligned (%)
36.4
Duplicates removed (%)
47.8
Number of peaks
17786 (qval < 1E-05)

Base call quality data from DBCLS SRA