Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MEF2A

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
GSM1010834
antibody antibodydescription
Rabbit polyclonal IgG, epitope mapping at the C-terminus of MEF-2 of human origin. Antibody Target: MEF2A
antibody targetdescription
The protein encoded by this gene is a DNA-binding transcription factor that activates many muscme-specific, growth factor-induced, and stress-induced genes.
antibody vendorid
sc-313
antibody vendorname
Santa Cruz Biotechnology
antibody
MEF2A
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
SL16761,SL13505
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL13493,SL14704
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
GSM1010834: HudsonAlpha_ChipSeq_SK-N-SH_MEF2A_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
50809038
Reads aligned (%)
81.9
Duplicates removed (%)
8.6
Number of peaks
12597 (qval < 1E-05)

hg38

Number of total reads
50809038
Reads aligned (%)
83.6
Duplicates removed (%)
7.3
Number of peaks
12569 (qval < 1E-05)

Base call quality data from DBCLS SRA