Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Neural
Cell type
BE(2)-C
Primary Tissue
Brain
Site of Extraction
Bone Marrow
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
BE2_C
biomaterial_provider
ATCC
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
BE2_C
cell organism
human
cell description
neuroblastoma, BE-C is a clone of the SK-N-BE neuroblastoma cell line (see ATCC CRL-2271) that was established in November of 1972 from a bone marrow biopsy taken from a 2-year-old individual with disseminated neuroblastoma after repeated courses of chemotherapy and radiotherapy.
cell karyotype
cancer
cell lineage
ectoderm
cell sex
M
antibody
H3K4me3
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
Millipore
antibody vendorid
07-473
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH001892
labexpid
DS18309
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945241: UW_ChipSeq_BE2_C_H3K4me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
48874385
Reads aligned (%)
99.2
Duplicates removed (%)
16.7
Number of peaks
36524 (qval < 1E-05)

hg19

Number of total reads
48874385
Reads aligned (%)
98.8
Duplicates removed (%)
17.4
Number of peaks
37048 (qval < 1E-05)

Base call quality data from DBCLS SRA