Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Neural

Cell type

SK-N-SH

Primary Tissue

Brain

Tissue Diagnosis

Neuroblastoma

Sample

source_name

SK-N-SH_RA

biomaterial_provider

ATCC

lab

UW

lab description

Stamatoyannopoulous - University of Washington

datatype

ChipSeq

datatype description

Chromatin IP Sequencing

cell

SK-N-SH_RA

cell organism

human

cell description

neuroblastoma cell line, treatment: differentiated with retinoic acid, (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

Input

antibody description

Control signal which may be subtracted from experimental raw signal before peaks are called.

treatment

None

treatment description

No special treatment or protocol applies

control

std

control description

Standard input signal for most experiments.

controlid

wgEncodeEH000474

labexpid

DS11605

labversion

Bowtie 0.12.5

replicate

1

Sequenced DNA Library

library_name

GSM945317: UW_ChipSeq_SK-N-SH_RA_Input

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

Sequencing Platform

instrument_model

Illumina Genome Analyzer

hg38

Number of total reads

19992344

Reads aligned (%)

98.2

Duplicates removed (%)

3.4

Number of peaks

550 (qval < 1E-05)

hg19

Number of total reads

19992344

Reads aligned (%)

97.3

Duplicates removed (%)

5.1

Number of peaks

911 (qval < 1E-05)