Antigen

Antigen Class

Histone

Antigen

H3K4me3

Cell type

Cell type Class

Neural

Cell type

SK-N-MC

Primary Tissue

Brain

Site of Extraction

Brain

Tissue Diagnosis

neuroepithelioma

Sample

source_name

SK-N-MC

biomaterial_provider

ATCC

lab

UW

lab description

Stamatoyannopoulous - University of Washington

datatype

ChipSeq

datatype description

Chromatin IP Sequencing

cell

SK-N-MC

cell organism

human

cell description

neuroepithelioma cell line derived from a metastatic supra-orbital human brain tumor, "SK-N-MC was isolated in September of l971 and was found to have moderate dopamine - beta - hydroxylase activity as well as formaldehyde induced fluorescence indicative of intracellular catecholamines." - ATCC. (Biedler, et al. Morphology and Growth, Tumorigenicity, and Cytogenetics of Human Neuroblastoma Cells in Continuous Culture. Cancer Research 33, 2643-2652, November 1973.)

cell karyotype

cancer

cell lineage

ectoderm

cell sex

F

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

wgEncodeEH001901

labexpid

DS18344

labversion

Bowtie 0.12.7

replicate

1

Sequenced DNA Library

library_name

GSM945264: UW_ChipSeq_SK-N-MC_H3K4me3

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

Sequencing Platform

instrument_model

Illumina Genome Analyzer

hg38

Number of total reads

29886721

Reads aligned (%)

98.2

Duplicates removed (%)

16.4

Number of peaks

24786 (qval < 1E-05)

hg19

Number of total reads

29886721

Reads aligned (%)

97.8

Duplicates removed (%)

17.0

Number of peaks

24816 (qval < 1E-05)