Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMCHD1

Cell type

Cell type Class
Neural
Cell type
SH-SY5Y
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
SH-SY5Y neuroblastoma-5azaC treated
cell line
SH-SY5Y
cell line source tissue
bone marrow
cell type
neurobalstoma cells
passage
15-20
treated with
DNA demethylating agent 5azaC for 72 hrs
chip antibody
anti-SmcHD1 antiserum

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The cells were fixed using 1% formaldehyde. Upon cell cysis, the chromatin was sheared by sonication and SmcHD1 bound chromatin was isolated using anti-SmcHD1 antiserum. The DNA libraries were prepared according the Illumina's suggested protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
52693363
Reads aligned (%)
186.9
Duplicates removed (%)
2.3
Number of peaks
1067 (qval < 1E-05)

hg38

Number of total reads
52693363
Reads aligned (%)
189.2
Duplicates removed (%)
2.0
Number of peaks
1720 (qval < 1E-05)

Base call quality data from DBCLS SRA