Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXM1

Cell type

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

Attributes by original data submitter

Sample

GEO Accession
GSM1010750
antibody antibodydescription
Rabbit polyclonal IgG, epitope mapping at the C-terminus of FOXM1 of human origin. Antibody Target: FOXM1
antibody targetdescription
The protein encoded by this gene is a transcriptional activator involved in cell proliferation. The encoded protein is phosphorylated in M phase and regulates the expression of several cell cycle genes, such as cyclin B1 and cyclin D1. Several transcript variants encoding different isoforms have been found for this gene. (provided by RefSeq, Jul 2011)
antibody vendorid
sc-502
antibody vendorname
Santa Cruz Biotechnology
antibody
FOXM1_(SC-502)
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 organism
human
cell sex
F
cell
SK-N-SH
controlid
SL12791,SL13505
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL14596,SL13083
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
softwareversion
MACS
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010750: HudsonAlpha_ChipSeq_SK-N-SH_FOXM1_(SC-502)_v042211.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
53432757
Reads aligned (%)
73.1
Duplicates removed (%)
9.2
Number of peaks
10844 (qval < 1E-05)

hg38

Number of total reads
53432757
Reads aligned (%)
74.6
Duplicates removed (%)
8.0
Number of peaks
10983 (qval < 1E-05)

Base call quality data from DBCLS SRA