Sample information curated by ChIP-Atlas

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

Attributes by original data submitter

Sample

source_name
SH-SY5Y
biomaterial_provider
ATCC
lab
USC
lab description
Farnham - University of Southern California
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
SH-SY5Y
cell organism
human
cell description
neuroblastoma clonal subline of the neuroepithelioma cell line SK-N-SH from the 1970 bone marrow biopsy of a 4-year-old girl with metastatic neuroblastoma, trisomy of 1q
cell karyotype
cancer
cell lineage
ectoderm
cell sex
F
treatment
None
treatment description
No special treatment or protocol applies
antibody
Input
antibody description
Control signal which may be subtracted from experimental raw signal before peaks are called.
control
UCDavis
control description
Input library was prepared at UC Davis.
control
UCDavis
control description
Input library was prepared at UC Davis.
controlid
wgEncodeEH001783

Sequenced DNA Library

library_name
GSM935321: USC_ChipSeq_SH-SY5Y_Input_UCDavis
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
51471940
Reads aligned (%)
85.4
Duplicates removed (%)
3.4
Number of peaks
798 (qval < 1E-05)

hg19

Number of total reads
51471940
Reads aligned (%)
85.0
Duplicates removed (%)
3.9
Number of peaks
1035 (qval < 1E-05)

Base call quality data from DBCLS SRA