Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NRF1

Cell type

Cell type Class
Neural
Cell type
SK-N-SH
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
SK-N-SH
biomaterial_provider
ATCC
lab
Stanford
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
SK-N-SH
cell organism
human
cell description
neuroblastoma, newly promoted to tier 2: not in 2011 analysis, the SK-N-SH line was established from a neuroblastoma in a 4 year old individual.
cell karyotype
cancer
cell lineage
ectoderm
cell sex
F
treatment
None
treatment description
No special treatment or protocol applies
antibody
Nrf1
antibody antibodydescription
Mouse monoclonal, Immunogen corresponding to amino acids 201-286 of Human NRF1. Antibody Target: NRF1
antibody targetdescription
NRF1 is the mammalian homolog to the erect wing (ewg) Drosophila protein that is required for proper development of the central nervous system and indirect flight muscles. In mammals NRF1 functions as a transcription factor that activates the expression of the EIF2S1 (EIF-alpha) gene. This protein links the transcriptional modulation of key metabolic genes to cellular growth and development, and has been implicated in the control of nuclear genes required for respiration, heme biosynthesis and mitochondrialDNA transcription and replication. NRF1 forms a homodimer and binds DNA as a dimer. NRF1 shows a nuclear localization and is expressed widely in embryonic, fetal and adult tissues. Phosphorylation of NRF1 enhances DNA binding.
antibody vendorname
Abcam
antibody vendorid
ab55744
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
controlid
wgEncodeEH003393

Sequenced DNA Library

library_name
GSM1003630: Stanford_ChipSeq_SK-N-SH_Nrf1_IgG-rab
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
50295335
Reads aligned (%)
73.9
Duplicates removed (%)
15.1
Number of peaks
11798 (qval < 1E-05)

hg38

Number of total reads
50295335
Reads aligned (%)
75.5
Duplicates removed (%)
13.8
Number of peaks
11778 (qval < 1E-05)

Base call quality data from DBCLS SRA